Statistics Summary Report for ISFI Center

Last updated: Mar 11 2010

• 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: 378

      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	293	100.0	-	-	-
Expressed	200	68.3	100.0	-	-
Soluble	150	51.2	75.0	-	-
Purified	137	46.8	68.5	100.0	-
Crystallized	95	32.4	47.5	69.3	100.0
Diffraction-quality Crystals	76	25.9	38.0	55.5	80.0
Diffraction	68	23.2	34.0	49.6	71.6
NMR Assigned	0	0.0	0.0	0.0	-
HSQC	0	0.0	0.0	0.0	-
Crystal Structure	60	20.5	30.0	43.8	63.2
NMR Structure	0	0.0	0.0	0.0	-
In PDB1	35	11.9	17.5	25.5	37
Work Stopped	11	-	-	-	-
Test Target	3	-	-	-	-
Other	0	-	-	-	-

Last updated: Mar 11 2010

Table 2: Status Statistics for ISFI by Organism

These statistics are derived from mapping of target sequences to GenBank using >=98% sequence identity cut off

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	364	11	282	196	135	95	60	0	35
Prokaryota	366	11	284	196	135	95	60	0	35
Yeast	9	0	9	4	2	0	0	0	0
Human	2	0	0	0	0	0	0	0	0
Eukaryota	12	0	9	4	2	0	0	0	0

Last updated: Mar 11 2010

Note 1:   Total counts in this table may differ from total number of targets and structures. A target is counted in different organism specifications if:
- a target is mapped to different organisms
- a targtet is a hybrid complex (for example:a complex of human and mouse polypeptides)

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Deposited Structure Statistics for ISFI Center

Number of Released X-Ray Structures: 12

Number of Released NMR Structures: 1

Total number of released structures from ISFI center in the PDB: 13

Table 3: PDB Status Statistics for Structures from ISFI

PDB Status	Number of Structures
Total Deposited	31
Released	13
In Process	18

Last updated: Mar 11 2010

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: 31

Structures of distinct targets: 311

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_148	Experimental status "in PDB", PDB ID is not provided	ISFI425	-	-	-	none
ND_140	Experimental status "in PDB", PDB ID is not provided	ISFI490	-	-	-	none
ND_151	Experimental status "in PDB", PDB ID is not provided	ISFI704	-	-	-	none
ND_152	Experimental status "in PDB", PDB ID is not provided	ISFI734	-	-	-	none
ND_139	Experimental status "in PDB", PDB ID is not provided	ISFI397	-	-	-	none
ND_145	Experimental status "in PDB", PDB ID is not provided	ISFI508	-	-	-	none
ND_153	Experimental status "in PDB", PDB ID is not provided	ISFI735	-	-	-	none
ND_146	Experimental status "in PDB", PDB ID is not provided	ISFI516	-	-	-	none
ND_136	Experimental status "in PDB", PDB ID is not provided	ISFI107	-	-	-	none
ND_149	Experimental status "in PDB", PDB ID is not provided	ISFI426	-	-	-	none
ND_143	Experimental status "in PDB", PDB ID is not provided	ISFI493	-	-	-	none
ND_144	Experimental status "in PDB", PDB ID is not provided	ISFI502	-	-	-	none
ND_141	Experimental status "in PDB", PDB ID is not provided	ISFI491	-	-	-	none
ND_138	Experimental status "in PDB", PDB ID is not provided	ISFI394	-	-	-	none
ND_147	Experimental status "in PDB", PDB ID is not provided	ISFI422	-	-	-	none
ND_142	Experimental status "in PDB", PDB ID is not provided	ISFI492	-	-	-	none
ND_137	Experimental status "in PDB", PDB ID is not provided	ISFI418	-	-	-	none
ND_150	Experimental status "in PDB", PDB ID is not provided	ISFI430	-	-	-	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
3FHK	crystal structure of apc1446, b.subtilis yphp disulfide isomerase	ISFI308	2008-12-09	2009-09-01	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
3H3E	crystal structure of tm1679, a metal-dependent hydrolase of the beta-lactamase superfamily	ISFI337	2009-04-16	2009-07-14	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: Mar 11 2010

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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	314	239	146	111	81	49	26
<90	310	235	142	108	78	49	26
<70	307	234	141	107	78	49	26
<50	301	229	139	105	77	49	26
<30	245	198	124	99	73	48	26

Last updated: 10-03-08

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	4	4	100
Total	13	10	77

Last updated:10-03-11

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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