Statistics Summary Report for NYCOMPS Center

Last updated: Jul 2 2009

• Target Status Statistics
  • Table 1: Status Statistics for NYCOMPS
  • Table 2: Status Statistics for NYCOMPS by Organisms
• Deposited Structure Statistics
  • Table 3: PDB Status Statistics for Structures from NYCOMPS
  • Table 4: List of Structures Deposited by NYCOMPS in the PDB
• Sequence Redundancy Statistics
  • Table 5: Sequence Redundancy Statistics for NYCOMPS by Experimental Status
  • Table 6: Sequence Redundancy Statistics for Structures Released by NYCOMPS in the PDB by Year

Target Status Statistics

Total number of targets deposited by NYCOMPS to TargetDB: 6752

      View NYCOMPS Target List

Table 1: Status Statistics for NYCOMPS

Status	Total Number of Targets	(%) Relative to "Cloned" Targets	(%) Relative to "Expressed" Targets	(%) Relative to "Purified" Targets	(%) Relative to "Crystallized" Targets
Cloned	2989	100.0	-	-	-
Expressed	2106	70.5	100.0	-	-
Soluble	20	0.7	0.9	-	-
Purified	410	13.7	19.5	100.0	-
Crystallized	0	0.0	0.0	0.0	0
Diffraction-quality Crystals	1	0.0	0.0	0.2	0
Diffraction	1	0.0	0.0	0.2	0
NMR Assigned	0	0.0	0.0	0.0	-
HSQC	0	0.0	0.0	0.0	-
Crystal Structure	0	0.0	0.0	0.0	0
NMR Structure	0	0.0	0.0	0.0	-
In PDB1	1	0.0	0.0	0.2	0
Work Stopped	5294	-	-	-	-
Test Target	0	-	-	-	-
Other	3106	-	-	-	-

Last updated: Jul 2 2009

Table 2: Status Statistics for NYCOMPS by Organism

Organism	Total Number1	Work Stopped	Cloned	Expressed	Purified	Crystallized	Crystal Structure	NMR Structure	In PDB2
Archaea	549	470	267	150	20	0	0	0	0
Bacteria	6119	4765	2722	1956	390	0	0	0	1
Total Prokaryotes	6668	5235	2989	2106	410	0	0	0	1
Yeast	23	11	0	0	0	0	0	0	0
Trypanosoma	15	13	0	0	0	0	0	0	0
Fly	23	19	0	0	0	0	0	0	0
Human	23	16	0	0	0	0	0	0	0
Total	6752	5294	2989	2106	410	0	0	0	1

Last updated: Jul 2 2009

Note 1:   Total counts in this table may differ from total number of targets. If targtet is a hybrid complex
(for example:a complex of human and mouse polypeptides) it is counted in different organism classifications.
Note 2:   Number of targets with status "in PDB" may not be equal to number of structures determined by a project. A target may reference several PDB IDs (example: structure of the same polypeptides with different ligands). Multiple targets in TargetDB may identify the same PDB structure when a stucture is a result of collaboration between different centers and each center includes the target on its target list. back to top

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Deposited Structure Statistics for NYCOMPS Center

Number of Released X-Ray Structures: 0

Number of Released NMR Structures: 0

Total number of released structures from NYCOMPS center in the PDB: 0

Table 3: PDB Status Statistics for Structures from NYCOMPS

PDB Status	Number of Structures
Total Deposited	1
Released	0
In Process	1

Last updated: Jul 2 2009

Note 1:   "Total Deposited" are all structures in the PDB including structures released to the public and structures that are in the process to be released("Released on Publication" , "Released on Certain Date", etc.).

Table 4: List of Structures Deposited in the PDB by NYCOMPS

Total number of structures: 1

Structures of distinct targets: 11

1   A target may reference several PDB IDs (example: structure of the same polypeptides with different ligands).
In this case only one structure is counted to compute number of structures of distinct targets

Related PDB_ID(s): PDB_ID(s) associated with the same target in targetDB

PDB_ID	Title	Target_id	Deposition Date	Released Date	PDB Status	Related PDB_ID in TargetDB
ND_149	Experimental status "in PDB", PDB ID is not provided	GO.3204	-	-	-	none

Note 1:  Last updated: Jul 2 2009

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Sequence Redundancy Statistics

Table 5: Sequence Redundancy Statistics for NYCOMPS by Experimental Status

Sequence Identity(%)	Novel Targets Status: Selected	Novel Targets Status: Cloned	Novel Targets Status: Expressed	Novel Targets Status: Purified	Novel Targets Status: Crystallized	Novel Targets Status: Crystal Structure	Novel Targets Status: in PDB
<100	5031	3309	1326	0	0	0	0
<90	4667	3085	1264	0	0	0	0
<70	3902	2598	1092	0	0	0	0
<50	2565	1753	802	0	0	0	0
<30	630	556	321	0	0	0	0

Last updated: 09-04-28

Sequence redundancy is calculated by clustering analysis using BLASTClust program with similarity threshold set to percent of sequence identity.   Please view detailed explanation of sequence redundancy calculations and BLASTClust threshold settings.  Sequence redundancy calculations are based on comparison to all protein sequences in TargetDB which are in the same experimental status category and at least 20 amino acids long

Table 6:Sequence Redundancy Statistics for Structures Released by NYCOMPS by Year

Year

Released Structures

Number of Released Structures <30% Identity at Time of Release

Percent(%) of Released Structures <30% Identity(%) at Time of Release

Last updated:09-07-02

Sequence redundancy is calculated by clustering analysis using BLASTClust program with similarity threshold set to percent of sequence identity.   Please view detailed explanation of sequence redundancy calculations and BLASTClust threshold settings.  Sequence redundancy calculations are based on comparison to all protein sequences in the PDB which are at least 20 amino acids long

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