Contacts of the strand formed by residues 1197 - 1211 (chain D) in PDB entry 2ZLE
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 ASN1197 (chain D).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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427B ARG* 4.5 0.7 - - - +
429B PRO* 2.7 24.1 - - - +
430B ARG* 1.6 50.7 + - - +
431B ASN* 1.2 85.8 - - - +
434B GLN* 2.3 34.1 + - - +
1192D TYR* 4.0 11.4 - - - -
1193D ASN* 3.3 1.6 - - - +
1194D LYS 3.0 12.8 + - - -
1196D GLY* 1.3 56.6 - - - -
1198D LYS* 1.3 52.0 + - - +
1231D GLU 3.4 1.8 - - - -
1232D THR* 3.5 10.5 - - - -
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Residues in contact with LYS1198 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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431B ASN* 1.3 62.9 + - - +
432B PHE* 0.3 145.6 - - - +
433B GLN* 1.0 107.3 - - - +
434B GLN* 0.6 174.5 - - - +
435B PHE* 5.2 2.6 - - - -
1190D GLU* 3.3 15.8 + - - +
1192D TYR* 3.3 1.3 - - - -
1193D ASN* 3.9 11.9 - - - +
1197D ASN* 1.3 55.2 - - - +
1199D LEU 1.3 36.3 - - - -
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Residues in contact with LEU1199 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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434B GLN* 1.2 93.3 + - + +
435B PHE* 1.4 54.4 - - - +
436B PHE* 3.1 26.9 - - + +
437B GLY 4.5 3.6 - - - +
1191D VAL* 4.1 9.9 - - + -
1192D TYR 3.9 0.2 - - - -
1198D LYS 1.3 35.6 - - - -
1200D ASP* 1.3 54.9 + - - +
1201D LEU* 5.5 3.4 - - + -
1228D PHE* 4.2 29.8 - - + -
1229D LYS 4.2 5.4 - - - +
1230D GLY* 4.3 0.9 - - - -
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Residues in contact with ASP1200 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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36A PHE* 2.2 22.2 - - - -
37A GLN* 2.2 35.5 + - - +
433B GLN 4.9 1.8 - - - +
434B GLN* 4.7 1.1 - - - -
435B PHE* 1.4 159.5 - - + +
1189D ALA 2.9 2.2 + - - -
1199D LEU* 1.3 64.9 - - - +
1201D LEU* 1.3 55.2 + - - -
1202D TYR* 3.1 14.2 - - - -
1228D PHE* 3.1 6.6 - - - +
1229D LYS* 2.9 45.7 + - + +
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Residues in contact with LEU1201 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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435B PHE* 3.2 0.4 + - - -
437B GLY 4.4 14.1 - - - +
1189D ALA* 2.8 28.8 + - - +
1191D VAL* 4.1 20.0 - - + -
1199D LEU* 4.0 5.7 - - + -
1200D ASP* 1.3 71.2 - - - +
1202D TYR* 1.3 59.6 + - - +
1226D LEU* 4.2 21.8 - - + -
1227D GLY 3.6 16.6 - - - +
1228D PHE* 4.6 9.0 - - + +
1534D PHE* 3.3 22.3 - - + -
3150I MET 5.8 0.2 - - - +
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Residues in contact with TYR1202 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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35A ASN* 4.4 17.0 - - - +
37A GLN* 2.9 32.3 - - + +
1189D ALA 4.2 1.8 - - - +
1200D ASP* 3.1 9.2 - - - +
1201D LEU* 1.3 73.9 - - - +
1203D GLY* 1.3 64.6 + - - +
1225D ARG* 6.2 1.1 - - + -
1226D LEU* 3.5 8.1 - - - +
1227D GLY* 2.8 58.1 + - - +
1228D PHE 3.5 4.0 - - - -
1229D LYS* 3.7 21.5 - - + -
1243D GLN* 3.4 15.9 + - - -
1244D TRP 3.8 2.6 + - - -
1245D GLU* 2.4 44.2 + - + +
1534D PHE* 3.3 23.3 - - - +
3151I PRO* 5.2 0.4 - - + -
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Residues in contact with GLY1203 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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35A ASN* 5.2 3.8 + - - +
1202D TYR* 1.3 85.9 - - - +
1204D LYS* 1.3 64.8 + - - +
1225D ARG* 3.0 17.3 - - - -
1226D LEU* 4.1 0.7 - - - -
1533D GLN* 3.3 2.6 - - - +
1534D PHE* 3.0 43.6 + - - +
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Residues in contact with LYS1204 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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33A PRO* 2.4 54.8 - - + +
35A ASN* 6.1 2.2 - - - +
1203D GLY* 1.3 73.9 - - - +
1205D VAL* 1.3 63.0 + - - +
1206D ASP* 4.3 9.8 + - + +
1223D TYR* 3.1 34.2 + - + -
1224D MET* 3.2 7.9 - - - +
1225D ARG* 2.9 65.3 + - + +
1501D TYR* 6.2 0.4 - - - -
1531D VAL* 5.5 0.8 - - - +
1532D TYR 3.2 5.4 - - - -
1533D GLN* 3.7 6.0 + - + +
1534D PHE* 4.6 4.1 - - - -
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Residues in contact with VAL1205 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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33A PRO* 3.3 3.2 - - - +
1204D LYS* 1.3 78.3 - - - +
1206D ASP* 1.3 65.6 + - - +
1207D GLY* 3.8 2.4 + - - +
1222D THR* 4.9 9.4 - - + -
1223D TYR 3.7 8.7 - - - +
1224D MET* 4.3 15.3 - - + -
1530D LEU 3.7 2.3 - - - +
1531D VAL* 3.4 1.9 - - - -
1532D TYR* 3.0 42.7 + - + +
1534D PHE* 6.3 2.9 - - + -
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Residues in contact with ASP1206 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1204D LYS* 4.1 9.3 + - + -
1205D VAL* 1.3 72.5 - - - +
1207D GLY* 1.3 69.9 + - - +
1208D LEU* 3.2 11.6 + - - +
1222D THR* 3.4 3.8 - - - +
1223D TYR* 2.9 71.6 + - + +
1501D TYR* 2.8 28.2 + - - -
1529D GLY* 3.9 0.2 - - - -
1530D LEU 3.7 4.8 + - - -
1531D VAL* 3.4 22.9 - - + +
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Residues in contact with GLY1207 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1205D VAL* 3.8 5.1 + - - +
1206D ASP* 1.3 69.7 - - - +
1208D LEU* 1.3 58.0 + - - -
1222D THR* 3.8 12.8 - - - -
1528D LEU 3.9 0.9 - - - +
1529D GLY* 3.3 2.8 - - - -
1530D LEU* 2.8 45.0 + - - +
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Residues in contact with LEU1208 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1206D ASP* 3.2 14.1 + - - +
1207D GLY* 1.3 73.0 - - - -
1209D HIS* 1.3 58.7 + - - +
1210D TYR* 4.0 5.2 - - + +
1220D ASP* 3.4 6.9 - - - +
1221D GLN* 2.8 46.4 + - + +
1222D THR* 3.3 9.1 + - - -
1223D TYR* 3.9 16.4 - - + -
1297D GLU* 3.5 29.4 - - - +
1501D TYR* 3.2 25.8 - - + +
1527D ALA* 4.3 4.0 - - + -
1528D LEU 3.5 14.8 - - - +
1529D GLY* 3.9 5.2 - - - -
3553J PHE* 4.7 1.8 - - + +
3555J GLY 2.0 36.2 - - - +
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Residues in contact with HIS1209 (chain D).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1208D LEU* 1.3 69.4 - - - +
1210D TYR* 1.3 49.3 + - - +
1211D PHE* 3.4 40.8 - + + -
1218D ASP* 4.9 1.4 + - - -
1219D GLY* 3.5 25.1 - - - -
1220D ASP* 3.7 9.9 + - + +
1526D VAL 3.8 0.5 - - - +
1527D ALA* 3.5 1.9 - - - -
1528D LEU* 3.0 33.6 + - + +
3542J ASN* 5.6 3.0 + - - -
3555J GLY* 1.1 84.2 + - - -
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Residues in contact with TYR1210 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1208D LEU* 4.0 1.1 - - + -
1209D HIS* 1.3 34.5 - - - +
1211D PHE* 1.3 54.5 + - - +
1217D VAL* 3.2 0.9 - - + -
1218D ASP* 3.1 1.6 - - - +
1219D GLY 2.9 7.0 + - - -
1297D GLU* 2.5 41.7 + - + +
1298D PHE* 4.0 7.8 - + - -
1525D ILE* 3.9 4.7 - - + -
1526D VAL 3.5 2.5 - - - -
1527D ALA* 4.0 9.4 - - + -
3552J GLN* 3.0 31.8 - - + +
3553J PHE* 2.3 21.6 + - - -
3554J PHE* 0.9 331.1 - + + -
3555J GLY* 1.1 92.3 - - - +
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Residues in contact with PHE1211 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1209D HIS* 3.4 41.1 - + + -
1210D TYR* 1.3 71.9 - - - +
1212D SER* 1.3 59.4 + - - +
1218D ASP* 3.5 2.2 - - - -
1525D ILE* 3.4 0.5 - - - -
1526D VAL* 2.7 36.8 + - + +
1528D LEU* 3.9 27.1 - - + -
3542J ASN* 4.4 32.1 - - + -
3543J THR 5.0 1.8 - - - +
3545J ARG* 2.6 54.5 - - - +
3554J PHE* 2.6 1.7 - - - -
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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