Statistics Summary Report for XMTB Center

Last updated: Feb 2 2012

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

Target Status Statistics

Total number of targets deposited by XMTB to TargetDB: 222

      View XMTB Target List

Table 1: Status Statistics for XMTB

Status	Total Number of Targets	(%) Relative to "Cloned" Targets	(%) Relative to "Expressed" Targets	(%) Relative to "Purified" Targets	(%) Relative to "Crystallized" Targets
Cloned	0	0	-	-	-
Expressed	0	0	0	-	-
Soluble	0	0	0	-	-
Purified	0	0	0	0	-
Crystallized	0	0	0	0	0
Diffraction-quality Crystals	0	0	0	0	0
Diffraction	0	0	0	0	0
NMR Assigned	0	0	0	0	-
HSQC	0	0	0	0	-
Crystal Structure	13	0	0	0	0
NMR Structure	0	0	0	0	-
In PDB1	13	0	0	0	0
Work Stopped	0	-	-	-	-
Test Target	0	-	-	-	-
Other	0	-	-	-	-

Last updated: Feb 2 2012

Note 1:   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.

Table 2: Status Statistics for XMTB 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 PDB
Bacteria	221	0	0	0	0	0	12	0	13
Prokaryota	221	0	0	0	0	0	12	0	13

Last updated: Feb 2 2012

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 target is a hybrid complex (for example:a complex of human and mouse polypeptides).

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Deposited Structure Statistics for XMTB Center

Number of Released X-Ray Structures: 15

Number of Released NMR Structures: 0

Total number of released structures from XMTB center in the PDB: 15

Table 3: PDB Status Statistics for Structures from XMTB

PDB Status	Number of Structures
Total Deposited	15
Released	15
Release on Publication	0
Release on Certain Date	0
In Process	0

Last updated: Feb 2 2012

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 XMTB

Total number of structures: 18

Structures of distinct targets: 151

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
1W66	title withheld	rv2217 TB:Rv2217	2004-08-13	2005-12-08	REL	none
1YS7	crystal structure of the response regulator protein prra comlexed with mg2+	rv0903c TB:Rv0903c	2005-02-07	2006-02-07	REL	none
1ZEL	crystal structure of rv2827c protein from mycobacterium tuberculosis	rv2827c TB:Rv2827c	2005-04-19	2006-05-02	REL	none
1S8N	crystal structure of rv1626 from mycobacterium tuberculosis	rv1626 TB:Rv1626	2004-02-03	2004-09-21	REL	1SD5
1SD5	crystal structure of rv1626	rv1626 TB:Rv1626	2004-02-13	2004-09-21	REL	none
1YL6	crystal structure of mycobacterium tuberculosis dihydrodipicolinate reductase (rv2773c) (crystal form b)	rv2773c TB:Rv2773c	2005-01-19	2006-01-17	REL	none
1W0D	the high resolution structure of mycobacterium tuberculosis leub (rv2995c)	rv2995c TB:Rv2995c	2004-06-03	2004-12-14	REL	none
1YL7	the crystal structure of mycobacterium tuberculosis dihydrodipicolinate reductase (rv2773c) in complex with nadh (crystal form c)	rv2773c TB:Rv2773c	2005-01-19	2006-01-17	REL	none
1XXX	crystal structure of dihydrodipicolinate synthase (dapa, rv2753c) from mycobacterium tuberculosis	rv2753c TB:Rv2753c	2004-11-09	2006-02-14	REL	none
2BZR	crystal structure of accd5 (rv3280), an acyl-coa carboxylase beta- subunit from mycobacterium tuberculosis	rv3280	2005-08-22	2007-01-02	REL	none
1YSR	crystal structure of atp binding domain of prrb from mycobacterium tuberculosis	rv0902c TB:Rv0902c	2005-02-09	2005-07-12	REL	none
1YL5	crystal structure of mycobacterium tuberculosis dihydrodipicolinate reductase (rv2773c) (crystal form a)	rv2773c TB:Rv2773c	2005-01-19	2006-01-17	REL	none
1YS6	crystal structure of the response regulatory protein prra from mycobacterium tuberculosis	rv0903c TB:Rv0903c	2005-02-07	2006-02-07	REL	1YS7
1YS3	crystal structure of the atp binding domain of prrb from mycobacterium tuberculosis	rv0902c TB:Rv0902c	2005-02-07	2005-07-12	REL	1YSR
2BJB	mycobacterium tuberculosis epsp synthase in unliganded state	rv3227 TB:Rv3227	2005-02-01	2006-03-09	REL	none
1ZKV	the structure of the regx3 response regulator from mycobacterium tuberculosis	rv0491	2005-05-04	0000-00-00	WDRN	none
2BT5	structure of rv2140, a phosphatidyl-ethanolamine binding protein from mycobacterium tuberuculosis	rv2140c	2005-05-26	0000-00-00	WDRN	none
2CBK	x-ray crystal structure of rv2018 from mycobacterium tuberculosis	rv2018	2006-01-05	0000-00-00	WDRN	none

Last updated: Feb 2 2012

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Sequence Redundancy Statistics

Table 5: Sequence Redundancy Statistics for XMTB 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	222	0	0	0	0	13	13
<98	222	0	0	0	0	13	13
<95	222	0	0	0	0	13	13
<90	221	0	0	0	0	13	13
<70	220	0	0	0	0	13	13
<50	214	0	0	0	0	13	13
<40	200	0	0	0	0	13	12
<30	115	0	0	0	0	13	11

Last updated: 12-01-10

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 XMTB 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
2004	3	0	0
2005	3	2	67
2006	8	1	13
2007	1	0	0
Total	15	3	20

Last updated: 12-02-02

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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