NMR Restraints Grid
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NMR Restraints Grid |
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Result table
| image | mrblock_id | pdb_id | bmrb_id | cing | stage | program | type | subtype | subsubtype |
|
|
408205 |
1yr1   |
6395 | cing | 4-filtered-FRED | Wattos | check | completeness | distance |
data_1yr1
save_NOE_Completeness
_NOE_completeness_stats.Sf_category NOE_completeness_statistics
_NOE_completeness_stats.Model_count 25
_NOE_completeness_stats.Residue_count 119
_NOE_completeness_stats.Total_atom_count 1869
_NOE_completeness_stats.Observable_atom_definition ob_standard
_NOE_completeness_stats.Observable_atom_count 644
_NOE_completeness_stats.Use_intra_residue_restraints no
_NOE_completeness_stats.Redundancy_threshold_pct 5.0
_NOE_completeness_stats.Distance_averaging_power 1.00
_NOE_completeness_stats.Completeness_cutoff 4.00
_NOE_completeness_stats.Completeness_cumulative_pct 60.5
_NOE_completeness_stats.Constraint_unexpanded_count 2746
_NOE_completeness_stats.Constraint_count 2746
_NOE_completeness_stats.Constraint_exp_unfiltered_count 2298
_NOE_completeness_stats.Constraint_exceptional_count 0
_NOE_completeness_stats.Constraint_nonobservable_count 88
_NOE_completeness_stats.Constraint_intraresidue_count 362
_NOE_completeness_stats.Constraint_surplus_count 238
_NOE_completeness_stats.Constraint_observed_count 2058
_NOE_completeness_stats.Constraint_expected_count 2081
_NOE_completeness_stats.Constraint_matched_count 1259
_NOE_completeness_stats.Constraint_unmatched_count 799
_NOE_completeness_stats.Constraint_exp_nonobs_count 822
_NOE_completeness_stats.Details
;
A detailed methodology description is available at:
http://nmr.cmbi.ru.nl/~jd/wattos/doc/Wattos/Soup/Constraint/dc_completeness.html
Please note that the contributions in ambiguous restraints are considered
separate 'restraints' for the sets defined below.
The cut off for all statistics except those in the by-shell table is
given below by the above tag: _NOE_completeness_stats.Completeness_cutoff
Description of the tags in this list:
* 1 * Administrative tag
* 2 * Administrative tag
* 3 * Administrative tag
* 4 * Number of models
* 5 * Number of residues
* 6 * Number of atoms
* 7 * Standard set name of observable atom definitions
see: Doreleijers et al., J.Biomol.NMR 14, 123-132 (1999).
* 8 * Observable atom(group)s
* 9 * Include intra residue restraints
* 10 * Surplus threshold for determining redundant restraints
* 11 * Power for averaging the distance over models
* 12 * Up to what distance are NOEs expected
* 13 * Cumulative completeness percentage
* 14 * Number of unexpanded restraints in restraint list.
* 15 * Number of restraints in restraint list. Set U
* 16 * Expected restraints based on criteria in list. Set V
Set V differs from set B only if intra residue restraints are analyzed.
* 17 * Exceptional restraints, i.e. with an unknown atom.Set E
* 18 * Not observable NOEs with e.g. hydroxyl Ser HG. Set O
Even though restraints with these atom types might have been observed they are
excluded from the analysis.
* 19 * Intra-residue restraints if not to be analyzed. Set I
* 20 * Surplus like double restraints. Set S
* 21 * Observed restraints. Set A = U - (E u O u I u S)
* 22 * Expected restraints based on criteria as in A. Set B = V - (I u S)
* 23 * Observed restraints matched to the expected. Set M = A n B
* 24 * Observed restraints that were not expected. Set C = A - M
* 25 * Expected restraints that were not observed. Set D = B - M
* 26 * This tag
Description of the tags in the class table:
* 1 * Class of restraint. Note that 'medium-range' involves (2<=i<=4) contacts.
Possible values are: intraresidue,sequential,medium-range,long-range, and intermolecular.
* 2 * Observed restraints. Set A = U - (E u O u I u S)
* 3 * Expected restraints based on criteria as in A. Set B = V - (I u S)
* 4 * Observed restraints matched to the expected. Set M = A n B
* 5 * Completeness percentage
* 6 * Standard deviation from the average over the classes.
* 7 * Extra information
* 8 * Administrative tag
* 9 * Administrative tag
Description of the tags in the shell table.
The first row shows the lower limit of the shells requested and
The last row shows the total number of restraints over the shells.
* 1 * Description of the content of the row: edges, shell, or sums.
The value determines the meaning of the values to the nine 'Matched_shell_x' tags among others.
* 2 * Lower limit of shell of expected restraints.
* 3 * Upper limit of shell of expected restraints.
* 4 * Expected restraints based on criteria as in A. Set B = V - (I u S)
* 5 * Observed restraints matched to the expected. Set M = A n B
* 6 * Matched restraints with experimental distance in shell 1
* 7 * Matched restraints with experimental distance in shell 2
* 8 * Matched restraints with experimental distance in shell 3
* 9 * Matched restraints with experimental distance in shell 4
* 10 * Matched restraints with experimental distance in shell 5
* 11 * Matched restraints with experimental distance in shell 6
* 12 * Matched restraints with experimental distance in shell 7
* 13 * Matched restraints with experimental distance in shell 8
* 14 * Matched restraints with experimental distance in shell 9
* 15 * Matched restraints overflowing the last shell
* 16 * Completeness percentage for this shell
* 17 * Completeness percentage up to upper limit of this shell
* 18 * Administrative tag
* 19 * Administrative tag
Description of the tags in the residue table:
* 1 * Chain identifier
* 2 * Residue number
* 3 * Residue name
* 4 * Observable atom(group)s for this residue.
* 5 * Observed restraints. Set A = U - (E u O u I u S)
* 6 * Expected restraints based on criteria as in A. Set B = V - (I u S)
* 7 * Observed restraints matched to the expected. Set M = A n B
* 8 * Completeness percentage
* 9 * Standard deviation from the average over the residues.
* 10 * Extra information
* 11 * Administrative tag
* 12 * Administrative tag
;
loop_
_NOE_completeness_class.Type
_NOE_completeness_class.Constraint_observed_count
_NOE_completeness_class.Constraint_expected_count
_NOE_completeness_class.Constraint_matched_count
_NOE_completeness_class.Completeness_cumulative_pct
_NOE_completeness_class.Std_dev
_NOE_completeness_class.Details
intraresidue 0 0 0 . . "no intras"
sequential 562 526 337 64.1 1.0 >sigma
medium-range 484 448 262 58.5 -0.7 .
long-range 1012 1107 660 59.6 -0.3 .
intermolecular 0 0 0 . . "no multimer"
stop_
loop_
_NOE_completeness_shell.Type
_NOE_completeness_shell.Shell_start
_NOE_completeness_shell.Shell_end
_NOE_completeness_shell.Constraint_expected_count
_NOE_completeness_shell.Constraint_matched_count
_NOE_completeness_shell.Matched_shell_1
_NOE_completeness_shell.Matched_shell_2
_NOE_completeness_shell.Matched_shell_3
_NOE_completeness_shell.Matched_shell_4
_NOE_completeness_shell.Matched_shell_5
_NOE_completeness_shell.Matched_shell_6
_NOE_completeness_shell.Matched_shell_7
_NOE_completeness_shell.Matched_shell_8
_NOE_completeness_shell.Matched_shell_9
_NOE_completeness_shell.Matched_shell_overflow
_NOE_completeness_shell.Completeness_shell_pct
_NOE_completeness_shell.Completeness_cumulative_pct
edges . . . . 2.00 2.50 3.00 3.50 4.00 4.50 5.00 5.50 . . . .
shell 0.00 2.00 75 64 0 2 8 7 6 12 11 10 . 8 85.3 85.3
shell 2.00 2.50 282 221 1 36 36 40 17 23 29 12 . 27 78.4 79.8
shell 2.50 3.00 364 263 0 15 44 47 34 22 28 25 . 48 72.3 76.0
shell 3.00 3.50 536 320 0 1 17 45 54 35 40 32 . 96 59.7 69.1
shell 3.50 4.00 824 391 0 0 3 48 43 78 59 37 . 123 47.5 60.5
shell 4.00 4.50 1319 406 0 0 0 1 43 54 75 72 . 161 30.8 49.0
shell 4.50 5.00 1632 244 0 0 0 0 3 34 20 36 . 151 15.0 37.9
shell 5.00 5.50 1911 128 0 0 0 0 0 3 19 13 . 93 6.7 29.3
shell 5.50 6.00 2205 16 0 0 0 0 0 0 0 0 . 16 0.7 22.4
shell 6.00 6.50 2463 4 0 0 0 0 0 0 0 0 . 4 0.2 17.7
shell 6.50 7.00 2787 1 0 0 0 0 0 0 0 0 . 1 0.0 14.3
shell 7.00 7.50 3030 0 0 0 0 0 0 0 0 0 . 0 0.0 11.8
shell 7.50 8.00 3328 0 0 0 0 0 0 0 0 0 . 0 0.0 9.9
shell 8.00 8.50 3528 0 0 0 0 0 0 0 0 0 . 0 0.0 8.5
shell 8.50 9.00 3734 0 0 0 0 0 0 0 0 0 . 0 0.0 7.3
sums . . 28018 2058 1 54 108 188 200 261 281 237 . 728 . .
stop_
loop_
_NOE_completeness_comp.Entity_assembly_ID
_NOE_completeness_comp.Comp_index_ID
_NOE_completeness_comp.Comp_ID
_NOE_completeness_comp.Obs_atom_count
_NOE_completeness_comp.Constraint_observed_count
_NOE_completeness_comp.Constraint_expected_count
_NOE_completeness_comp.Constraint_matched_count
_NOE_completeness_comp.Completeness_cumulative_pct
_NOE_completeness_comp.Std_dev
_NOE_completeness_comp.Details
1 1 GLY 3 1 2 0 0.0 -3.7 >sigma
1 2 SER 4 5 6 1 16.7 -2.7 >sigma
1 3 GLU 5 14 8 5 62.5 0.1 .
1 4 TRP 10 49 32 24 75.0 0.8 .
1 5 ARG 7 28 19 15 78.9 1.1 >sigma
1 6 ARG 7 34 30 18 60.0 -0.1 .
1 7 ILE 6 65 68 42 61.8 0.1 .
1 8 ALA 3 48 41 30 73.2 0.7 .
1 9 TYR 6 71 66 43 65.2 0.3 .
1 10 VAL 5 89 68 52 76.5 0.9 .
1 11 TYR 6 55 46 32 69.6 0.5 .
1 12 ASP 4 29 16 14 87.5 1.6 >sigma
1 13 ARG 7 5 13 3 23.1 -2.3 >sigma
1 14 GLN 7 13 11 10 90.9 1.8 >sigma
1 15 THR 4 39 30 24 80.0 1.1 >sigma
1 16 PHE 7 65 67 44 65.7 0.3 .
1 17 PHE 7 89 73 54 74.0 0.8 .
1 18 PRO 5 33 45 23 51.1 -0.6 .
1 19 LEU 7 94 79 62 78.5 1.1 >sigma
1 20 LEU 7 76 67 44 65.7 0.3 .
1 21 GLU 5 47 44 36 81.8 1.3 >sigma
1 22 ASN 6 27 24 13 54.2 -0.4 .
1 23 GLY 3 31 23 20 87.0 1.6 >sigma
1 24 ARG 7 43 38 22 57.9 -0.2 .
1 25 LEU 7 86 64 52 81.3 1.2 >sigma
1 26 LEU 7 55 47 24 51.1 -0.6 .
1 27 LYS 7 43 34 23 67.6 0.4 .
1 28 GLN 7 27 15 10 66.7 0.3 .
1 29 GLU 5 32 28 17 60.7 -0.0 .
1 30 GLY 3 31 21 19 90.5 1.8 >sigma
1 31 THR 4 49 29 27 93.1 1.9 >sigma
1 32 LYS 7 34 20 16 80.0 1.1 >sigma
1 33 THR 4 31 19 15 78.9 1.1 >sigma
1 34 ALA 3 25 16 15 93.8 2.0 >sigma
1 35 PRO 5 35 32 24 75.0 0.8 .
1 36 SER 4 7 6 3 50.0 -0.7 .
1 37 ASP 4 14 12 9 75.0 0.8 .
1 38 ALA 3 30 23 18 78.3 1.0 >sigma
1 39 PRO 5 34 45 26 57.8 -0.2 .
1 40 VAL 5 47 63 34 54.0 -0.4 .
1 41 LEU 7 78 82 47 57.3 -0.2 .
1 42 VAL 5 39 47 28 59.6 -0.1 .
1 43 GLY 3 6 13 6 46.2 -0.9 .
1 44 TRP 10 41 67 27 40.3 -1.2 >sigma
1 45 LYS 7 4 7 3 42.9 -1.1 >sigma
1 46 ASP 4 10 18 8 44.4 -1.0 .
1 47 GLY 3 13 15 10 66.7 0.3 .
1 48 ASP 4 15 15 8 53.3 -0.5 .
1 49 ALA 3 29 27 20 74.1 0.8 .
1 50 ILE 6 67 66 45 68.2 0.4 .
1 51 ALA 3 23 23 13 56.5 -0.3 .
1 52 GLU 5 25 26 16 61.5 0.0 .
1 53 MET 6 41 70 29 41.4 -1.2 >sigma
1 54 THR 4 54 50 28 56.0 -0.3 .
1 55 GLY 3 9 13 5 38.5 -1.3 >sigma
1 56 GLN 7 24 43 15 34.9 -1.6 >sigma
1 57 LEU 7 76 94 51 54.3 -0.4 .
1 58 ALA 3 33 27 18 66.7 0.3 .
1 59 GLU 5 17 19 12 63.2 0.1 .
1 60 LEU 7 47 74 33 44.6 -1.0 .
1 61 PRO 5 38 42 25 59.5 -0.1 .
1 62 ALA 3 20 19 14 73.7 0.8 .
1 63 ALA 3 25 30 14 46.7 -0.9 .
1 64 VAL 5 52 67 30 44.8 -1.0 .
1 65 LEU 7 57 78 38 48.7 -0.7 .
1 66 GLY 3 17 15 7 46.7 -0.9 .
1 67 ALA 3 31 28 20 71.4 0.6 .
1 68 MET 6 42 54 25 46.3 -0.9 .
1 69 SER 4 8 15 4 26.7 -2.1 >sigma
1 70 GLU 5 29 37 18 48.6 -0.7 .
1 71 ILE 6 70 78 47 60.3 -0.0 .
1 72 HIS 6 31 38 19 50.0 -0.7 .
1 73 TYR 6 30 39 18 46.2 -0.9 .
1 74 LYS 7 35 40 23 57.5 -0.2 .
1 75 PRO 5 26 25 20 80.0 1.1 >sigma
1 76 THR 4 35 25 16 64.0 0.2 .
1 77 ARG 7 14 11 3 27.3 -2.0 >sigma
1 78 GLU 5 22 13 7 53.8 -0.4 .
1 79 TYR 6 45 36 24 66.7 0.3 .
1 80 GLU 5 18 12 11 91.7 1.8 >sigma
1 81 ASP 4 32 28 21 75.0 0.8 .
1 82 ARG 7 52 54 31 57.4 -0.2 .
1 83 VAL 5 65 58 32 55.2 -0.3 .
1 84 ILE 6 65 63 41 65.1 0.3 .
1 85 VAL 5 59 59 39 66.1 0.3 .
1 86 TYR 6 37 40 21 52.5 -0.5 .
1 87 MET 6 39 51 24 47.1 -0.8 .
1 88 ASN 6 21 23 14 60.9 -0.0 .
1 89 ASP 4 14 19 10 52.6 -0.5 .
1 90 GLY 3 11 9 6 66.7 0.3 .
1 91 TYR 6 14 27 11 40.7 -1.2 >sigma
1 92 GLU 5 21 16 13 81.3 1.2 >sigma
1 93 VAL 5 39 39 25 64.1 0.2 .
1 94 SER 4 29 22 14 63.6 0.2 .
1 95 ALA 3 47 33 24 72.7 0.7 .
1 96 THR 4 41 40 26 65.0 0.2 .
1 97 ILE 6 64 73 47 64.4 0.2 .
1 98 ARG 7 23 24 14 58.3 -0.2 .
1 99 GLN 7 20 24 8 33.3 -1.7 >sigma
1 100 PHE 7 64 82 49 59.8 -0.1 .
1 101 ALA 3 32 40 24 60.0 -0.1 .
1 102 ASP 4 18 21 13 61.9 0.1 .
1 103 LYS 7 37 40 23 57.5 -0.2 .
1 104 LEU 7 63 71 41 57.7 -0.2 .
1 105 SER 4 21 19 16 84.2 1.4 >sigma
1 106 HIS 6 7 9 6 66.7 0.3 .
1 107 TYR 6 45 37 25 67.6 0.4 .
1 108 PRO 5 13 11 7 63.6 0.2 .
1 109 ALA 3 17 19 11 57.9 -0.2 .
1 110 ILE 6 52 62 36 58.1 -0.2 .
1 111 ALA 3 32 30 18 60.0 -0.1 .
1 112 ALA 3 10 18 7 38.9 -1.3 >sigma
1 113 ALA 3 15 25 10 40.0 -1.3 >sigma
1 114 LEU 7 20 45 11 24.4 -2.2 >sigma
1 115 ASP 4 16 12 8 66.7 0.3 .
1 116 ARG 7 12 11 8 72.7 0.7 .
1 117 ASN 6 9 8 7 87.5 1.6 >sigma
1 118 VAL 5 10 8 6 75.0 0.8 .
1 119 LYS 7 4 4 3 75.0 0.8 .
stop_
save_
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