Statistics Summary Report for ISFI Center

Last updated: Jul 2 2009

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

Target Status Statistics

Total number of targets deposited by ISFI to TargetDB: 363

      View ISFI Target List

Table 1: Status Statistics for ISFI

Status	Total Number of Targets	(%) Relative to "Cloned" Targets	(%) Relative to "Expressed" Targets	(%) Relative to "Purified" Targets	(%) Relative to "Crystallized" Targets
Cloned	280	100.0	-	-	-
Expressed	185	66.1	100.0	-	-
Soluble	136	48.6	73.5	-	-
Purified	123	43.9	66.5	100.0	-
Crystallized	88	31.4	47.6	71.5	100.0
Diffraction-quality Crystals	69	24.6	37.3	56.1	78.4
Diffraction	61	21.8	33.0	49.6	69.3
NMR Assigned	0	0.0	0.0	0.0	-
HSQC	0	0.0	0.0	0.0	-
Crystal Structure	53	18.9	28.6	43.1	60.2
NMR Structure	0	0.0	0.0	0.0	-
In PDB1	28	10.0	15.1	22.8	32
Work Stopped	5	-	-	-	-
Test Target	3	-	-	-	-
Other	0	-	-	-	-

Last updated: Jul 2 2009

Table 2: Status Statistics for ISFI by Organism

Organism	Total Number1	Work Stopped	Cloned	Expressed	Purified	Crystallized	Crystal Structure	NMR Structure	In PDB2
Archaea	2	0	2	0	0	0	0	0	0
Bacteria	349	5	269	181	121	88	53	0	28
Total Prokaryotes	351	5	271	181	121	88	53	0	28
Yeast	9	0	9	4	2	0	0	0	0
Human	2	0	0	0	0	0	0	0	0
Other Eukaryotes	1	0	0	0	0	0	0	0	0
Total Eukaryotes	12	0	9	4	2	0	0	0	0
Total	363	5	280	185	123	88	53	0	28

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 ISFI Center

Number of Released X-Ray Structures: 10

Number of Released NMR Structures: 1

Total number of released structures from ISFI center in the PDB: 11

Table 3: PDB Status Statistics for Structures from ISFI

PDB Status	Number of Structures
Total Deposited	24
Released	11
In Process	13

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 ISFI

Total number of structures: 24

Structures of distinct targets: 241

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_140	Experimental status "in PDB", PDB ID is not provided	ISFI397	-	-	-	none
ND_139	Experimental status "in PDB", PDB ID is not provided	ISFI394	-	-	-	none
ND_145	Experimental status "in PDB", PDB ID is not provided	ISFI425	-	-	-	none
ND_146	Experimental status "in PDB", PDB ID is not provided	ISFI426	-	-	-	none
ND_143	Experimental status "in PDB", PDB ID is not provided	ISFI516	-	-	-	none
ND_144	Experimental status "in PDB", PDB ID is not provided	ISFI422	-	-	-	none
ND_141	Experimental status "in PDB", PDB ID is not provided	ISFI502	-	-	-	none
ND_138	Experimental status "in PDB", PDB ID is not provided	ISFI418	-	-	-	none
ND_147	Experimental status "in PDB", PDB ID is not provided	ISFI430	-	-	-	none
ND_142	Experimental status "in PDB", PDB ID is not provided	ISFI508	-	-	-	none
ND_137	Experimental status "in PDB", PDB ID is not provided	ISFI107	-	-	-	none
3FHK	crystal structure of apc1446, b.subtilis yphp disulfide isomerase	ISFI308	2008-12-09	0000-00-00	AUTH	none
3H3E	crystal structure of tm1679, a metal-dependent hydrolase of the beta-lactamase superfamily	ISFI337	2009-04-16	0000-00-00	AUTH	none
3G5O	the crystal structure of the toxin-antitoxin complex relbe2 (rv2865-2866) from mycobacterium tuberculosis	ISFI120 ISFI:ISFI121	2009-02-05	2009-04-14	REL	none
3E57	crystal structure of tm1382, a putative nudix hydrolase	ISFI338	2008-08-13	2008-09-30	REL	none
2NYX	crystal structure of rv1404 from mycobacterium tuberculosis	ISFI155 TB:Rv1404	2006-11-21	2006-12-05	REL	none
2IB0	crystal structure of a conserved hypothetical protein, rv2844, from mycobacterium tuberculosis	ISFI195 TB:Rv2844	2006-09-08	2006-09-26	REL	none
3H87	rv0301 rv0300 toxin antitoxin complex from mycobacterium tuberculosis	ISFI521 ISFI:ISFI522	2009-04-28	2009-05-05	REL	none
3FMS	crystal structure of tm0439, a gntr transcriptional regulator	ISFI332	2008-06-02	2008-07-01	REL	none
2G38	a pe/ppe protein complex from mycobacterium tuberculosis	ISFI142 TB:Rv2430c TB:Rv2431c ISFI:ISFI141	2006-02-17	2006-03-14	REL	none
2JPB	solution structure of ompr-c dna binding protein	ISFI333	2007-05-03	2007-06-12	REL	none
3DBO	crystal structure of a member of the vapbc family of toxin-antitoxin systems, vapbc-5, from mycobacterium tuberculosis	ISFI449 ISFI:ISFI450	2008-06-02	2008-07-15	REL	none
2G2D	crystal structure of a putative pduo-type atp:cobalamin adenosyltransferase from mycobacterium tuberculosis	ISFI15 TB:Rv1314c	2006-02-15	2006-03-28	REL	none
3E4X	crystal structure of putative metal-dependent hydrolases apc36150	ISFI154	2008-08-12	2008-10-14	Replaced by:3GOR	none

Note 1:  Last updated: Jul 2 2009

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Sequence Redundancy Statistics

Table 5: Sequence Redundancy Statistics for ISFI 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	249	204	119	87	61	32	9
<90	247	202	117	86	60	32	9
<70	245	202	117	86	60	32	9
<50	242	200	117	86	60	32	9
<30	183	167	103	82	60	32	9

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 ISFI 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
2006	4	3	75
2007	1	0	0
2008	4	3	75
2009	2	2	100
Total	11	8	73

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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