PSI TargetDB

Statistics Summary Report for SPINE Center

Last updated: Mar 17 2010



Target Status Statistics

Total number of targets deposited by SPINE to TargetDB: 1095

      View SPINE Target List

Table 1: Status Statistics for SPINE

Status Total Number of Targets(%) Relative to "Cloned" Targets(%) Relative to "Expressed" Targets(%) Relative to "Purified" Targets(%) Relative to "Crystallized" Targets
Cloned633100.0---
Expressed47474.9100.0--
Soluble30948.865.2--
Purified19731.141.6100.0-
Crystallized7211.415.236.5100.0
Diffraction-quality Crystals528.211.026.472.2
Diffraction406.38.420.355.6
NMR Assigned294.66.114.7-
HSQC497.710.324.9-
Crystal Structure7411.715.637.6102.8
NMR Structure284.45.914.2-
In PDB16710.614.134.057
Work Stopped3----
Test Target0----
Other0----

Last updated: Mar 17 2010

Table 2: Status Statistics for SPINE 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
Viruses15018933116702
Archaea51027111100
Bacteria44502632338432361130
Prokaryota49602902348533371130
Yeast1505220022
Plasmodium801110000
Worm101110011
Drosophila1107530011
Mouse140189743098410
Human38022151808328251529
Eukaryota447225220510033301735
Uncultured or unidentified101100000

Last updated: Mar 17 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 SPINE Center

Number of Released X-Ray Structures: 60

Number of Released NMR Structures: 34

Total number of released structures from SPINE center in the PDB: 94

Table 3: PDB Status Statistics for Structures from SPINE

PDB StatusNumber of Structures
Total Deposited97
Released94
Release on Publication0
Release on Certain Date0
In Process3
Last updated: Mar 17 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 SPINE

Total number of structures: 97

Structures of distinct targets: 671

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 TitleTarget_id Deposition DateReleased Date PDB StatusRelated PDB_ID in TargetDB
ND_160 Experimental status "in PDB", PDB ID is not providedCIRMMP23---none
1UV1 -CIRMMP33---1UV2
1UV2 -CIRMMP33---none
1USL structure of mycobacterium tuberculosis ribose-5-phosphate isomerase, rpib, rv2465c, complexed with phosphate.rv2465c TB:Rv2465c2003-11-252004-01-02RELnone
1XDS crystal structure of aclacinomycin-10-hydroxylase (rdmb) in complex with s-adenosyl-l-methionine (sam) and 11-deoxy-beta-rhodomycin (dbra)St_022004-09-082004-11-23RELnone
1FCY isotype selectivity of the human retinoic acid nuclear receptor hrar: the complex with the rarbeta/gamma-selective retinoid cd564IGBMC-0078-0002000-07-192000-09-11RELnone
1R1K crystal structure of the ligand-binding domains of the heterodimer ecr/usp bound to ponasterone aIGBMC-0090-000 NON-SPINE:IGBMC-0091-0002003-09-242003-11-18REL1R20
2LBD ligand-binding domain of the human retinoic acid receptor gamma bound to all-trans retinoic acidIGBMC-0078-0001997-08-191997-11-12RELnone
1T5C crystal structure of the motor domain of human kinetochore protein cenp-eCENP-E_3422004-05-042005-05-10RELnone
1MVO crystal structure of the phop receiver domain from bacillus subtilisIGBMC-1123-0002002-09-262002-10-16RELnone
1M5T crystal structure of the response regulator divkIGBMC-1121-0002002-07-102002-11-15REL1M5U 1MAV 1MB0 1MB3
1TXE solution structure of the active-centre mutant ile14ala of the histidine-containing phosphocarrier protein (hpr) from staphylococcus carnosusREGEN_HPr_Sc2004-07-042005-03-08RELnone
1NM4 solution structure of cu(i)-copc from pseudomonas syringaeCIRMMP012003-01-092003-04-08REL1OT4
2BZE nmr structure of human rtf1 plus3 domain.BCBRA0222005-08-162007-01-03RELnone
1P6U nmr structure of the bef3-activated structure of the response regulator chey2-mg2+ from sinorhizobium meliloti12003-04-302003-11-04RELnone
2BSY epstein barr virus dutpaseP6-000-000-0092005-05-242005-09-15REL2BT1
1OSC crystal structure of rat cuta1 at 2.15 a resolutionCIRMMP042003-03-192003-11-25RELnone
1FCX isotype selectivity of the human retinoic acid nuclear receptor hrar: the complex with the rargamma-selective retinoid bms184394IGBMC-0078-0002000-07-192000-09-11RELnone
1ON4 solution structure of soluble domain of sco1 from bacillus subtilisCIRMMP022003-02-272003-11-11RELnone
1SU3 x-ray structure of human prommp-1: new insights into collagenase actionMPIB-4012004-03-262004-12-21RELnone
1SB6 solution structure of a cyanobacterial copper metallochaperone, scatx1CIRMMP342004-02-102004-04-27RELnone
1KA5 refined solution structure of histidine containing phosphocarrier protein from staphyloccocus aureusREGEN_HPr_Sa1995-11-201996-03-08RELnone
1YCM solution structure of matrix metalloproteinase 12 (mmp12) in the presence of n-isobutyl-n-[4-methoxyphenylsulfonyl]glycyl hydroxamic acid (nngh)CIRMMP482004-12-222005-04-19RELnone
1YLK crystal structure of rv1284 from mycobacterium tuberculosis in complex with thiocyanateRv1284 TB:Rv12842005-01-192005-03-08RELnone
1OLZ the ligand-binding face of the semaphorins revealed by the high resolution crystal structure of sema4dOPTIC71642003-08-192003-09-11RELnone
1EXX enantiomer discrimination illustrated by crystal structures of the human retinoic acid receptor hrargamma ligand binding domain: the complex with the inactive s-enantiomer bms270395.IGBMC-0078-0002000-05-052000-06-09RELnone
1SJW structure of polyketide cyclase snoalST_32004-03-042004-04-27RELnone
1TW2 crystal structure of carminomycin-4-o-methyltransferase (dnrk) in complex with s-adenosyl-l-homocystein (sah) and 4-methoxy-e-rhodomycin t (m-et)ST_042004-06-302004-09-14RELnone
1OQ3 a core mutation affecting the folding properties of a soluble domain of the atpase protein copa from bacillus subtilisCIRMMP052003-03-072003-09-16REL1OQ6
1MB3 crystal structure of the response regulator divk at ph 8.5 in complex with mg2+IGBMC-1121-0002002-08-022002-12-04RELnone
1UWY crystal structure of human carboxypeptidase mMPIB-4272004-02-172004-04-08RELnone
1TL4 solution structure of cu(i) hah1CIRMMP272004-06-092004-10-26REL1TL5
2C2I structure and function of rv0130, a conserved hypothetical protein from m.tuberculosisrv01302005-09-292006-09-14RELnone
2BF8 crystal structure of sumo modified ubiquitin conjugating enzyme e2- 25kSUMO2004-12-062005-02-16RELnone
1QZZ crystal structure of aclacinomycin-10-hydroxylase (rdmb) in complex with s-adensyl-l-methionine (sam)St_022003-09-192003-11-25REL1XDS
1YJU solution structure of the apo form of the sixth soluble domain of menkes proteinCIRMMP282005-01-152006-01-03RELnone
1FD0 isotype selectivity of the human retinoic acid nuclear receptor hrar: the complex with the rargamma-selective retinoid sr11254IGBMC-0078-0002000-07-192002-09-27RELnone
1QKU wild type estrogen nuclear receptor ligand binding domain complexed with estradiolIGBMC-0005-0001999-08-052000-08-18RELnone
1YUR solution structure of apo-s100a13 (minimized mean structure)CIRMMP112005-02-142005-10-18RELnone
1X9L solution structure of cui-dr1885 from deinococcus radioduransCIRMMP122004-08-232004-08-31REL1X7L
1BON three-dimensional structure of bombyxin-ii, an insulin-related brain-secretory peptide of the silkmoth bombyx mori: comparison with insulin and relaxinAF311994-07-211995-01-26RELnone
2BDI human kallikrein 4 complex with cobalt and p-aminobenzamidineMPIB-2092005-10-202006-10-03RELnone
1S6O solution structure and backbone dynamics of the apo-form of the second metal-binding domain of the menkes protein atp7aCIRMMP252004-01-262004-04-06REL1S6U
1W74 x-ray structure of peptidyl-prolyl cis-trans isomerase a, ppia, rv0009, from mycobacterium tuberculosis.rv00092004-08-272004-10-20RELnone
4LBD ligand-binding domain of the human retinoic acid receptor gamma bound to the synthetic agonist bms961IGBMC-0078-0001998-02-041999-03-02RELnone
2BMX mycobacterium tuberculosis ahpcIPRv2428PALZ TB:Rv24282005-03-162005-05-10RELnone
1RJV solution structure of human alpha-parvalbumin refined with a paramagnetism-based strategyCIRMMP072003-11-202004-05-25REL1RK9
1YM3 crystal structure of carbonic anhydrase rv3588c from mycobacterium tuberculosisRv35882005-01-202005-03-08RELnone
1KV6 x-ray structure of the orphan nuclear receptor err3 ligand-binding domain in the constitutively active conformationIGBMC-0019-0002002-01-252003-01-25RELnone
1PFJ solution structure of the n-terminal ph/ptb domain of the tfiih p62 subunitIGBMC-0024-0002003-05-272004-06-08RELnone
1SW8 solution structure of the n-terminal domain of human n60d calmodulin refined with paramagnetism based strategyCIRMMP352004-03-302004-04-06RELnone
1QKT mutant estrogen nuclear receptor ligand binding domain complexed with estradiolIGBMC-0005-0001999-08-052000-08-18RELnone
1Y3K solution structure of the apo form of the fifth domain of menkes proteinCIRMMP262004-11-252005-03-08RELnone
1OQ6 solution structure of copper-s46v copa from bacillus subtilisCIRMMP052003-03-072003-09-16RELnone
1EXA enantiomer discrimination illustrated by crystal structures of the human retinoic acid receptor hrargamma ligand binding domain: the complex with the active r-enantiomer bms270394.IGBMC-0078-0002000-05-022000-06-09REL1EXX 1FCX 1FCY 1FCZ 1FD0 2LBD 3LBD 4LBD
1G50 crystal structure of a wild type her alpha lbd at 2.9 angstrom resolutionIGBMC-0005-0002000-10-302002-02-06REL1QKT 1QKU
1XA3 crystal structure of caib, a type iii coa transferase in carnitine metabolismAD592004-08-252004-11-16RELnone
1UB1 solution structure of the matrix attachment region-binding domain of chicken mecp232003-03-272003-08-05RELnone
1YJR solution structure of the apo form of the sixth soluble domain a69p mutant of menkes proteinCIRMMP292005-01-152006-01-03RELnone
1Q0Z crystal structure of aclacinomycin methylesterase (rdmc) with bound product analogue, 10-decarboxymethylaclacinomycin a (dcma)St_12003-07-182003-11-25RELnone
2BEP crystal structure of ubiquitin conjugating enzyme e2-25kHip22004-11-292005-02-16RELnone
2BDG human kallikrein 4 complex with nickel and p-aminobenzamidineMPIB-2092005-10-202006-10-03REL2BDH 2BDI
1ZJ8 structure of mycobacterium tuberculosis nira proteinMtb1 TB:Rv23912005-04-282005-05-31RELnone
1FCZ isotype selectivity of the human retinoic acid nuclear receptor hrar: the complex with the panagonist retinoid bms181156IGBMC-0078-0002000-07-192000-09-11RELnone
1UVQ crystal structure of hla-dq0602 in complex with a hypocretin peptideOPTIC71722004-01-222004-02-05RELnone
1YJE crystal structure of the rngfi-b ligand-binding domainIGBMC-1013-0002005-01-142005-02-22RELnone
1MAV crystal structure of the response regulator divk at ph 6.0 in complex with mn2+IGBMC-1121-0002002-08-022002-12-04RELnone
3LBD ligand-binding domain of the human retinoic acid receptor gamma bound to 9-cis retinoic acidIGBMC-0078-0001998-02-041999-03-02RELnone
1SZW crystal structure of e. coli trna pseudouridine synthase trudAF462004-04-062004-04-20RELnone
1UOS the crystal structure of the snake venom toxin convulxinOX_CVX2003-09-222003-10-14RELnone
1LBD ligand-binding domain of the human nuclear receptor rxr-alphaIGBMC-0017-0001996-05-221996-11-08RELnone
2BDH human kallikrein 4 complex with zinc and p-aminobenzamidineMPIB-2092005-10-202006-10-03RELnone
1P6Q nmr structure of the response regulator chey2 from sinorhizobium meliloti, complexed with mg++12003-04-302004-06-15REL1P6U
1TTX solution stucture of human beta parvalbumin (oncomodulin) refined with a paramagnetism based strategyCIRMMP082004-06-232005-01-18RELnone
2BT1 epstein barr virus dutpase in complex with a,b-imino dutpP6-000-000-0092005-05-242005-09-15RELnone
1S6U solution structure and backbone dynamics of the cu(i) form of the second metal-binding domain of the menkes protein atp7aCIRMMP252004-01-272004-04-06RELnone
1O6Y catalytic domain of pknb kinase from mycobacterium tuberculosisIPRv0014cPALZ TB:Rv0014c2002-10-212003-01-30RELnone
1SO9 solution structure of apocox11, 30 structuresCIRMMP182004-03-132004-08-10RELnone
1P6T structure characterization of the water soluble region of p-type atpase copa from bacillus subtilisCIRMMP062003-04-302003-12-16RELnone
1OT4 solution structure of cu(ii)-copc from pseudomonas syringaeCIRMMP012003-03-212003-07-08RELnone
2BNG structure of an m.tuberculosis leh-like epoxide hydrolaserv27402005-03-242005-08-03RELnone
1DKF crystal structure of a heterodimeric complex of rar and rxr ligand-binding domainsIGBMC-0012-0001999-12-072000-04-19RELnone
1O6E epstein-barr virus proteaseP6-000-000-0142002-09-132002-11-14RELnone
1TL5 solution structure of apohah1CIRMMP272004-06-092004-10-26RELnone
1MB0 crystal structure of the response regulator divk at ph 8.0 in complex with mn2+IGBMC-1121-0002002-08-022002-12-04RELnone
1NAQ crystal structure of cuta1 from e.coli at 1.7 a resolutionCIRMMP032002-11-282003-11-25RELnone
1M5U crystal structure of the response regulator divk. structure at ph 8.0 in the apo-formIGBMC-1121-0002002-07-102002-11-15RELnone
1G2N crystal structure of the ligand binding domain of the ultraspiracle protein usp, the ortholog of rxrs in insectsIGBMC-0091-0002000-10-202001-04-21REL1R1K 1R20
2BI0 x-ray structure of a conserved hypothetical protein, rv0216, from mycobacterium tuberculosis.rv0216 TB:Rv02162005-01-202005-04-25RELnone
1Q0R crystal structure of aclacinomycin methylesterase (rdmc) with bound product analogue, 10-decarboxymethylaclacinomycin t (dcmat)St_12003-07-172003-11-25REL1Q0Z
1W6V solution structure of the dusp domain of husp15BCBRA0162004-08-242006-01-12RELnone
1ZT4 the crystal structure of human cd1d with and without alpha-galactosylceramideCD1d_cell_surface_antigen2005-05-262005-07-19RELnone
1Y3J solution structure of the copper(i) form of the fifth domain of menkes proteinCIRMMP262004-11-252005-03-08REL1Y3K
1R20 crystal structure of the ligand-binding domains of the heterodimer ecr/usp bound to the synthetic agonist byi06830IGBMC-0090-000 NON-SPINE:IGBMC-0091-0002003-09-252003-11-18RELnone
1RK9 solution structure of human alpha-parvalbumin (minimized average structure)CIRMMP072003-11-212004-06-08RELnone
1Q7X solution structure of the alternatively spliced pdz2 domain (pdz2b) of ptp-bas (hptp1e)22003-08-202003-12-02RELnone
1X7L solution structure of apo-dr1885 from deinococcus radioduransCIRMMP122004-08-162004-08-31Replaced by:2JQAnone

Note 1:  Last updated: Mar 17 2010

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Sequence Redundancy Statistics

Table 5: Sequence Redundancy Statistics for SPINE 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
<10096859144218968702867
<9094158343718668702564
<7092257443118365672563
<5084254140816864642455
<3066344935215257582350
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 SPINE 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
<= 20001400
2001100
2002900
200320420
200423730
200519526
20067114
2007100
Total941718
Last updated:10-03-17
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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