Statistics Summary Report for SECSG Center

Last updated: Mar 11 2010

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

Target Status Statistics

Total number of targets deposited by SECSG to TargetDB: 15286

      View SECSG Target List

Table 1: Status Statistics for SECSG

Status	Total Number of Targets	(%) Relative to "Cloned" Targets	(%) Relative to "Expressed" Targets	(%) Relative to "Purified" Targets	(%) Relative to "Crystallized" Targets
Cloned	14876	100.0	-	-	-
Expressed	6410	43.1	100.0	-	-
Soluble	1461	9.8	22.8	-	-
Purified	837	5.6	13.1	100.0	-
Crystallized	239	1.6	3.7	28.6	100.0
Diffraction-quality Crystals	108	0.7	1.7	12.9	45.2
Diffraction	136	0.9	2.1	16.2	56.9
NMR Assigned	2	0.0	0.0	0.2	-
HSQC	24	0.2	0.4	2.9	-
Crystal Structure	96	0.6	1.5	11.5	40.2
NMR Structure	2	0.0	0.0	0.2	-
In PDB1	91	0.6	1.4	10.9	37
Work Stopped	746	-	-	-	-
Test Target	0	-	-	-	-
Other	0	-	-	-	-

Last updated: Mar 11 2010

Table 2: Status Statistics for SECSG 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	2100	13	1835	576	387	113	39	2	38
Bacteria	836	119	773	581	123	30	22	0	20
Prokaryota	2936	132	2608	1157	510	143	61	2	58
Worm	11298	607	11298	4952	243	78	19	0	19
Drosophila	11	7	11	7	1	1	1	0	1
Mouse	100	7	95	43	23	4	3	0	2
Human	447	9	392	131	66	9	7	0	6
Eukaryota	11743	607	11688	5085	317	94	33	0	32
Uncultured or unidentified	2	0	2	2	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 SECSG Center

Number of Released X-Ray Structures: 89

Number of Released NMR Structures: 3

Total number of released structures from SECSG center in the PDB: 92

Table 3: PDB Status Statistics for Structures from SECSG

PDB Status	Number of Structures
Total Deposited	92
Released	92
In Process	0

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 SECSG

Total number of structures: 93

Structures of distinct targets: 911

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
1RYQ	putative dna-directed rna polymerase, subunit e'' from pyrococcus furiosus pfu-263306-001	Pfu-263306-001	2003-12-22	2004-08-10	REL	none
1XI9	alanine aminotransferase from pyrococcus furiosus pfu-1397077-001	Pfu-1397077-001	2004-09-21	2004-11-23	REL	none
1XI8	molybdenum cofactor biosynthesis protein from pyrococcus furiosus pfu-1657500-001	Pfu-1657500-001	2004-09-21	2004-11-30	REL	none
1SPX	crystal structure of glucose dehydrogenase of caenorhabditis elegans in the apo-form	D1054.8	2004-03-17	2004-03-23	REL	none
2I0X	hypothetical protein pf1117 from pyrococcus furiosus	Pfu-1066282-001	2006-08-11	2006-10-10	REL	none
2HQX	crystal structure of human p100 tudor domain conserved region	Hsa-P100-TDL	2006-07-19	2006-10-10	REL	none
1ROW	structure of ssp-19, an msp-domain protein like family member in caenorhabditis elegans	C55C2.2	2003-12-02	2003-12-23	REL	none
1Z2U	the 1.1a crystallographic structure of ubiquitin-conjugating enzyme (ubc-2) from caenorhabditis elegans: functional and evolutionary significance	M7.1	2005-03-09	2005-03-22	REL	none
1SL7	crystal structure of calcium-loaded apo-obelin from obelia longissima	Oob-Ca_H_Obelin	2004-03-05	2004-12-28	REL	none
1R7J	crystal structure of the dna-binding protein sso10a from sulfolobus solfataricus	Sso-10a	2003-10-21	2004-07-20	REL	none
1Y81	conserved hypothetical protein pfu-723267-001 from pyrococcus furiosus	Pfu-723267-001	2004-12-10	2005-01-25	REL	none
1YIS	structural genomics of caenorhabditis elegans: adenylosuccinate lyase	R06C7.5	2005-01-12	2005-01-25	REL	none
1XQU	hit family hydrolase from clostridium thermocellum cth-393	Cth-393	2004-10-13	2004-12-14	REL	none
1YO6	crystal structure of the putative carbonyl reductase sniffer of caenorhabditis elegans	C55A6.5	2005-01-26	2005-02-15	REL	none
2HQ4	crystal structure of orf 1580 a hypothetical protein from pyrococcus horikoshii	PH1580	2006-07-18	2006-09-19	REL	none
2HPV	crystal structure of fmn-dependent azoreductase from enterococcus faecalis	FS-Azoa	2006-07-17	2006-09-12	REL	none
1Y82	conserved hypothetical protein pfu-367848-001 from pyrococcus furiosus	Pfu-367848-001	2004-12-10	2005-01-25	REL	none
2IC7	crystal structure of maltose transacetylase from geobacillus kaustophilus	GK1921-1 NON-RSGI:gka001001921.2	2006-09-12	2006-11-07	REL	none
2HQ1	crystal structure of orf 1438 a putative glucose/ribitol dehydrogenase from clostridium thermocellum	Cth-1438	2006-07-18	2006-09-12	REL	none
2A4K	3-oxoacyl-[acyl carrier protein] reductase from thermus thermophilus tt0137	Tth-TT0137 NON-RSGI:ttk003000137.1	2005-06-29	2006-01-10	REL	none
1R9H	structural genomics of c.elegans: fkbp-type peptidylprolyl isomerase	F31D4.3	2003-10-29	2003-12-02	REL	none
1SGW	putative abc transporter (atp-binding protein) from pyrococcus furiosus pfu-867808-001	Pfu-867808-001	2004-02-24	2004-08-10	REL	none
1MJF	putative spermidine synthetase from pyrococcus furiosus pfu-132382	Pfu-132382-001	2002-08-27	2002-09-18	REL	none
1SF0	backbone solution structure of mixed alpha/beta protein pf1061	Pfu-1016054-001	2004-02-19	2004-04-13	REL	none
1YBZ	conserved hypothetical protein from pyrococcus furiosus pfu-1581948-001	Pfu-1581948-001	2004-12-21	2005-02-01	REL	none
2HIQ	crystal structure of jw1657 from escherichia coli	Eco-JW1657 NON-RSGI:eco002001657.1	2006-06-29	2006-09-12	REL	none
2HPS	crystal structure of coelenterazine-binding protein from renilla muelleri	CBP	2006-07-17	2007-01-09	REL	none
1YD7	conserved hypothetical protein pfu-1647980-001 from pyrococcus furiosus	Pfu-1647980-001	2004-12-23	2005-02-08	REL	none
2IDG	crystal structure of hypothetical protein af0160 from archaeoglobus fulgidus	AF0160	2006-09-15	2006-11-14	REL	none
1YCY	conserved hypothetical protein pfu-1806301-001 from pyrococcus furiosus	Pfu-1806301-001	2004-12-23	2005-02-22	REL	none
1Q34	crystal structures of two ubc (e2) enzymes of the ubiquitin-conjugating system in caenorhabditis elegans	C35B1.1	2003-07-28	2003-08-05	REL	none
1XK8	divalent cation tolerant protein cuta from homo sapiens o60888	O60888	2004-09-27	2004-10-19	REL	none
1ZGH	methionyl-trna formyltransferase from clostridium thermocellum	Cth-2336	2004-09-16	2004-11-23	REL	none
1SEN	endoplasmic reticulum protein rp19 o95881	O95881	2004-02-17	2004-07-13	REL	none
1S36	crystal structure of a ca2+-discharged photoprotein: implications for the mechanisms of the calcium trigger and the bioluminescence	Oob-Ca_W92F_Obelin	2004-01-12	2004-10-05	REL	none
1XE1	hypothetical protein from pyrococcus furiosus pfu-880080-001	Pfu-880080-001	2004-09-08	2004-09-21	REL	none
1PZV	crystal structures of two ubc (e2) enzymes of the ubiquitin-conjugating system in caenorhabditis elegans	F58A4.10	2003-07-14	2003-07-22	REL	none
1YBY	conserved hypothetical protein cth-95 from clostridium thermocellum	Cth-95	2004-12-21	2005-02-01	REL	none
1XHC	nadh oxidase /nitrite reductase from pyrococcus furiosus pfu-1140779-001	Pfu-1140779-001	2004-09-17	2004-11-23	REL	none
1OOE	structural genomics of caenorhabditis elegans : dihydropteridine reductase	T03F6.1	2003-03-03	2003-03-18	REL	none
1XHL	crystal structure of putative tropinone reductase-ii from caenorhabditis elegans with cofactor and substrate	F25D1.5	2004-09-20	2004-09-28	REL	none
2IEL	crystal structure of tt0030 from thermus thermophilus	TT0030	2006-09-19	2006-11-14	REL	none
1XRG	conserved hypothetical protein from clostridium thermocellum cth-2968	Cth-2968	2004-10-14	2004-12-14	REL	none
1Y80	structure of a corrinoid (factor iiim)-binding protein from moorella thermoacetica	B12	2004-12-10	2005-01-25	REL	none
1NNQ	rubrerythrin from pyrococcus furiosus pfu-1210814	Pfu-1210814-001	2003-01-14	2004-03-02	REL	none
1NNH	hypothetical protein from pyrococcus furiosus pfu-1801964	Pfu-1801964-001	2003-01-13	2004-02-03	REL	none
1YQ1	structural genomics of caenorhabditis elegans: glutathione s-transferase	F37B1.5	2005-01-31	2005-02-15	REL	none
1YBX	conserved hypothetical protein cth-383 from clostridium thermocellum	Cth-383	2004-12-21	2005-02-01	REL	none
2F8P	crystal structure of obelin following ca2+ triggered bioluminescence suggests neutral coelenteramide as the primary excited state	Cadis-obelin	2005-12-03	2006-02-14	REL	none
1XI3	thiamine phosphate pyrophosphorylase from pyrococcus furiosus pfu-1255191-001	Pfu-1255191-001	2004-09-21	2004-09-28	REL	none
1JJF	structural basis for the substrate specificity of the feruloyl esterase domain of the cellulosomal xylanase z of clostridium thermocellum	Cth-FAEZ	2001-07-05	2001-10-31	REL	none
1VJK	putative molybdopterin converting factor, subunit 1 from pyrococcus furiosus, pfu-562899-001	Pfu-562899-001	2004-03-10	2004-08-10	REL	none
1T7S	structural genomics of caenorhabditis elegans: structure of bag-1 protein	AAD16125	2004-05-10	2004-05-18	REL	none
1XX7	conserved hypothetical protein from pyrococcus furiosus pfu-403030-001	Pfu-403030-001	2004-11-04	2004-12-28	REL	none
1XG7	conserved hypothetical protein pfu-877259-001 from pyrococcus furiosus	Pfu-877259-001	2004-09-16	2004-11-23	REL	none
2HR5	pf1283- rubrerythrin from pyrococcus furiosus iron bound form	Pfu-1210814-002	2006-07-19	2006-10-17	REL	none
2HQ8	crystal structure of coelenterazine-binding protein from renilla muelleri in the ca loaded apo form	CBP+Ca	2006-07-18	2006-09-12	REL	none
1NXC	structure of mouse golgi alpha-1,2-mannosidase ia reveals the molecular basis for substrate specificity among class i enzymes (family 47 glycosidases)	Mum-ManA1	2003-02-10	2004-05-04	REL	none
1PRY	structure determination of fibrillarin homologue from hyperthermophilic archaeon pyrococcus furiosus (pfu-65527)	Pfu-65527-001	2003-06-20	2004-03-09	REL	none
1Y6J	l-lactate dehydrogenase from clostridium thermocellum cth-1135	Cth-1135	2004-12-06	2004-12-14	REL	none
1YB3	conserved hypothetical protein pfu-178653-001 from pyrococcus furiosus	Pfu-178653-001	2004-12-19	2005-02-01	REL	none
1XMA	structure of a transcriptional regulator from clostridium thermocellum cth-833	Cth-833	2004-10-01	2004-12-14	REL	none
2HPK	crystal structure of photoprotein berovin from beroe abyssicola	Bab-Berovin(Ba13)	2006-07-17	2007-07-03	REL	none
1MO0	structural genomics of caenorhabditis elegans: triose phosphate isomerase	AAA79846	2002-09-06	2002-09-13	REL	none
1T9F	structural genomics of caenorhabditis elegans: structure of a protein with unknown function	R12E2.13	2004-05-16	2004-05-25	REL	none
2HJM	crystal structure of a singleton protein pf1176 from p. furiosus	PF1176	2006-06-30	2007-07-03	REL	none
1VKA	southeast collaboratory for structural genomics: hypothetical human protein q15691 n-terminal fragment	Q15691	2004-05-10	2004-07-13	REL	none
2HPW	green fluorescent protein from clytia gregaria	GFP	2006-07-17	2006-09-12	REL	none
1TWL	inorganic pyrophosphatase from pyrococcus furiosus pfu-264096-001	Pfu-264096-001	2004-07-01	2004-11-23	REL	none
2ICU	crystal structure of hypothetical protein yedk from escherichia coli	Eco-JW1916 NON-RSGI:eco002001916.1	2006-09-13	2006-11-07	REL	none
1VKC	putative acetyl transferase from pyrococcus furiosus	Pfu-35386-001	2004-05-11	2004-12-14	REL	none
1T0Y	solution structure of a ubiquitin-like domain from tubulin-binding cofactor b	F53F4.3 CESG:GO.33910	2004-04-13	2004-04-27	REL	none
1UPS	glcnac[alpha]1-4gal releasing endo-[beta]-galactosidase from clostridium perfringens	Cpe-EBGal	2003-10-10	2004-11-25	REL	none
1XKQ	crystal structure of short-chain dehydrogenase/reductase of unknown function from caenorhabditis elegans with cofactor	R05D8.7	2004-09-29	2004-10-12	REL	none
1YEM	conserved hypothetical protein pfu-838710-001 from pyrococcus furiosus	Pfu-838710-001	2004-09-28	2004-12-14	REL	none
1XI6	extragenic suppressor from pyrococcus furiosus pfu-1862794-001	Pfu-1862794-001	2004-09-21	2004-11-30	REL	none
1OOJ	structural genomics of caenorhabditis elegans : calmodulin	T21H3.3	2003-03-03	2003-03-25	REL	none
1RWD	backbone nmr structure of a mutant p. furiosus rubredoxin using residual dipolar couplings	Pfu-1210573-001	2002-06-26	2002-07-10	REL	none
1LPL	structural genomics of caenorhabditis elegans: cap-gly domain of f53f4.3	F53F4.3	2002-05-08	2002-05-22	REL	1T0Y 1TOV
2HQE	crystal structure of human p100 tudor domain: large fragment	Hsa-P100-TDS	2006-07-18	2007-07-03	REL	none
1QWK	structural genomics of caenorhabditis elegans: hypothetical 35.2 kda protein (aldose reductase family member)	C07D8.6	2003-09-02	2003-09-16	REL	none
1ZD0	crystal structure of pfu-542154 conserved hypothetical protein	Pfu-542154-001	2005-04-13	2005-05-17	REL	none
2FZF	hypothetical protein pfu-1136390-001 from pyrococcus furiosus	Pfu-1136390-001	2006-02-09	2006-02-21	REL	none
1VK1	conserved hypothetical protein from pyrococcus furiosus pfu-392566-001	Pfu-392566-001	2004-04-13	2004-08-10	REL	none
1XHO	chorismate mutase from clostridium thermocellum cth-682	Cth-682	2004-09-20	2004-11-23	REL	none
1TOV	structural genomics of caenorhabditis elegans: cap-gly domain of f53f4.3	F53F4.3	2004-06-15	2004-07-27	REL	none
1SL8	calcium-loaded apo-aequorin from aequorea victoria	Aae-Aeq	2004-03-05	2004-12-28	REL	none
1NNW	hypothetical protein from pyrococcus furiosus pfu-1218608	Pfu-1218608-001	2003-01-14	2003-02-11	REL	none
1L7L	crystal structure of pseudomonas aeruginosa lectin 1 determined by single wavelength anomalous scattering phasing method	Pae-lectin1	2002-03-15	2002-12-11	REL	none
2IA0	transcriptional regulatory protein pf0864 from pyrococcus furiosus a member of the asnc family (pf0864)	Pfu-839232-001	2006-09-06	2006-10-31	REL	none
1PGV	structural genomics of caenorhabditis elegans: tropomodulin c-terminal domain	C06A5.7	2003-05-28	2003-06-10	REL	none
1SHE	conserved hypothetical protein from pyrococcus furiosus pfu-871755-001	Pfu-871755-001	2004-02-25	2004-08-10	Replaced by:2PK8	none
1YE7	conserved hypothetical protein tt0235 from thermus thermophilus	Tth-0235	2004-12-28	0000-00-00	WDRN	none

Note 1:  Last updated: Mar 11 2010

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Sequence Redundancy Statistics

Table 5: Sequence Redundancy Statistics for SECSG 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: NMR Structure	Novel Targets Status: in PDB
<100	14675	14281	6179	828	234	92	2	87
<90	14403	14011	6063	822	232	90	2	85
<70	13964	13596	5944	816	230	89	2	85
<50	12818	12570	5661	797	224	86	2	82
<30	9628	9816	4763	725	201	81	2	78

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 SECSG 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
2001	1	1	100
2002	5	2	40
2003	9	1	11
2004	42	15	36
2005	14	7	50
2006	17	5	29
2007	4	2	50
Total	92	33	36

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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