Statistics Summary Report for S2F Center | Last updated: Aug 21 2008 |
Target Status Statistics
Total number of targets deposited by S2F to TargetDB: 336 View S2F Target List
Table 1: Status Statistics for S2F
| Status | Total Number of Targets | (%) Relative to "Cloned" Targets | (%) Relative to "Expressed" Targets | (%) Relative to "Purified" Targets | (%) Relative to "Crystallized" Targets |
| Cloned | 310 | 100.0 | - | - | - |
| Expressed | 174 | 56.1 | 100.0 | - | - |
| Soluble | 0 | 0.0 | 0.0 | - | - |
| Purified | 117 | 37.7 | 67.2 | 100.0 | - |
| Crystallized | 45 | 14.5 | 25.9 | 38.5 | 100.0 |
| Diffraction-quality Crystals | 0 | 0.0 | 0.0 | 0.0 | 0.0 |
| Diffraction | 40 | 12.9 | 23.0 | 34.2 | 88.9 |
| NMR Assigned | 0 | 0.0 | 0.0 | 0.0 | - |
| HSQC | 9 | 2.9 | 5.2 | 7.7 | - |
| Crystal Structure | 1 | 0.3 | 0.6 | 0.9 | 2.2 |
| NMR Structure | 1 | 0.3 | 0.6 | 0.9 | - |
| In PDB1 | 44 | 14.2 | 25.3 | 37.6 | 96 |
| Work Stopped | 0 | - | - | - | - |
| Test Target | 0 | - | - | - | - |
| Other | 0 | - | - | - | - |
Table 2: Status Statistics for S2F by Organism
| Organism | Total Number1 | Work Stopped | Cloned | Expressed | Purified | Crystallized | Crystal Structure | NMR Structure | In PDB2 |
| Bacteria | 336 | 0 | 310 | 174 | 117 | 45 | 1 | 1 | 44 |
| Total Prokaryotes | 336 | 0 | 310 | 174 | 117 | 45 | 1 | 1 | 44 |
| Total | 336 | 0 | 310 | 174 | 117 | 45 | 1 | 1 | 44 |
Last updated: Aug 21 2008
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". 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.
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Deposited Structure Statistics for S2F Center
Number of Released X-Ray Structures: 44
Number of Released NMR Structures: 7
Total number of released structures from S2F center in the PDB: 51
Table 3: PDB Status Statistics for Structures from S2F
| PDB Status | Number of Structures |
| Total Deposited | 51 |
| Released | 51 |
| Release on Publication | 0 |
| Release on Certain Date | 0 |
| In Process | 0 |
| Last updated: Aug 21 2008 |
| 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 S2F
Total number of structures: 51
Structures of distinct targets: 441
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 |
| 1M65 | ycdx protein | ycdX | 2002-07-12 | 2003-04-22 | REL | none |
| 1NNV | the solution structure of hi1450 | HI1450 | 2003-01-14 | 2004-01-27 | REL | none |
| 1JJV | dephospho-coa kinase in complex with atp | HI0890 | 2001-07-09 | 2002-05-01 | REL | none |
| 1NMP | structural genomics, ybgi protein, unknown function | ybgI | 2003-01-10 | 2004-01-20 | REL | none |
| 1JOV | crystal structure analysis of hi1317 | HI1317 | 2001-07-31 | 2003-06-24 | REL | none |
| 1J9A | oligoribonuclease | HI1715 | 2001-05-24 | 2003-06-24 | REL | none |
| 1NO5 | structure of hi0073 from haemophilus influenzae, the nucleotide binding domain of the hi0073/hi0074 two protein nucleotidyl transferase. | HI0073 | 2003-01-15 | 2004-03-16 | REL | none |
| 1IMU | solution structure of hi0257, a ribosome binding protein | HI0257 | 2001-05-11 | 2001-10-03 | REL | none |
| 1NMO | structural genomics, protein ybgi, unknown function | ybgI | 2003-01-10 | 2004-01-20 | REL | 1NMP |
| 1JOE | crystal structure of autoinducer-2 production protein (luxs) from heamophilus influenzae | HI0491 | 2001-07-27 | 2001-08-08 | REL | none |
| 1HTW | complex of hi0065 with adp and magnesium | HI0065 | 2001-01-01 | 2002-08-07 | REL | none |
| 1NRK | ygfz protein | ygfZ | 2003-01-24 | 2004-03-09 | REL | none |
| 1MXI | structure of yibk from haemophilus influenzae (hi0766): a methyltransferase with a cofactor bound at a site formed by a knot | HI0766 | 2002-10-02 | 2003-02-25 | REL | none |
| 1RW1 | yffb (pa3664) protein | PA3664 | 2003-12-15 | 2004-11-02 | REL | none |
| 1R8G | structure and function of ybdk | ybdK | 2003-10-24 | 2004-08-17 | REL | none |
| 1IN0 | yajq protein (hi1034) | HI1034 | 2001-05-11 | 2003-06-10 | REL | none |
| 2OUT | solution structure of hi1506, a novel two domain protein from haemophilus influenzae | HI1506 | 2007-02-12 | 2007-05-01 | REL | none |
| 1JOP | yhch protein (hi0227) | HI0227 | 2001-07-30 | 2003-06-17 | REL | none |
| 1NU0 | structure of the double mutant (l6m; f134m, semet form) of yqgf from escherichia coli, a hypothetical protein | yqgF | 2003-01-30 | 2004-03-02 | REL | none |
| 1J8B | structure of ybab from haemophilus influenzae (hi0442), a protein of unknown function | HI0442 | 2001-05-21 | 2003-01-14 | REL | none |
| 1MWW | the structure of the hypothetical protein hi1388.1 from haemophilus influenzae reveals a tautomerase/mif fold | HI1388.1 | 2002-10-01 | 2003-11-18 | REL | none |
| 1DBX | crystal structure of cysteinyl-trna(pro) deacylase from h. influenzae (hi1434) | HI1434 | 1999-11-03 | 2000-06-14 | REL | none |
| 1FL9 | the yjee protein | HI0065 | 2000-08-13 | 2002-08-07 | REL | 1HTW |
| 1K1E | structure of the cobalt-bound form of the deoxy-d-mannose-octulosonate 8-phosphate phosphatase (yrbi) from haemophilus influenzae (hi1679) | HI1679 | 2001-09-25 | 2002-02-27 | REL | none |
| 1J7G | structure of yihz from haemophilus influenzae (hi0670), a d-tyr-trna(tyr) deacylase | HI0670 | 2001-05-16 | 2003-04-22 | REL | none |
| 1JOG | structure of hi0074 from heamophilus influenzae reveals the fold of a substrate binding domain of a nucleotidyltransferase | HI0074 | 2001-07-29 | 2002-12-18 | REL | none |
| 2AIZ | solution structure of peptidoglycan associated lipoprotein from haemophilus influenza bound to udp-n-acetylmuramoyl-l-alanyl-d-glutamyl-meso-2,6-diaminopimeloyl-d-alanyl-d-alanine | HI0381 | 2005-08-01 | 2006-03-14 | REL | none |
| 1X6I | crystal structure of ygfy from escherichia coli | ygfY | 2004-08-11 | 2005-02-08 | REL | 1X6J |
| 1J85 | structure of yibk from haemophilus influenzae (hi0766), a truncated sequence homolog of trna (guanosine-2'-o-) methyltransferase (spou) | HI0766 | 2001-05-20 | 2003-02-25 | REL | 1MXI |
| 1LQA | tas protein from escherichia coli in complex with nadph | b2834 | 2002-05-09 | 2003-07-08 | REL | none |
| 1RXX | structure of arginine deiminase | PA5171 | 2003-12-18 | 2004-01-13 | REL | none |
| 3CA8 | crystal structure of escherichia coli ydcf, an s-adenosyl-l-methionine utilizing enzyme | ydcF | 2008-02-19 | 2008-05-06 | REL | none |
| 1OQF | crystal structure of the 2-methylisocitrate lyase | prpB | 2003-03-08 | 2004-04-27 | REL | none |
| 1IM8 | crystal structure of yeco from haemophilus influenzae (hi0319), a methyltransferase with a bound s-adenosylhomocysteine | HI0319 | 2001-05-10 | 2001-11-07 | REL | none |
| 2APN | hi1723 solution structure | HI1723 | 2005-08-16 | 2006-10-03 | REL | none |
| 1J8D | structure of the metal-free form of the deoxy-d-mannose-octulosonate 8-phosphate phosphatase (yrbi) from haemophilus influenzae (hi1679) | HI1679 | 2001-05-21 | 2002-02-27 | REL | 1K1E |
| 1MW5 | structure of hi1480 from haemophilus influenzae | HI1480 | 2002-09-27 | 2003-11-18 | REL | none |
| 1JOS | ribosome binding factor a(rbfa) | HI1288 | 2001-07-30 | 2003-06-24 | REL | none |
| 1IZM | structure of ygfb from haemophilus influenzae (hi0817), a conserved hypothetical protein | HI0817 | 2002-10-09 | 2003-12-02 | REL | none |
| 1JO0 | structure of hi1333, a hypothetical protein from haemophilus influenzae with structural similarity to rna-binding proteins | HI1333 | 2001-07-26 | 2002-11-20 | REL | none |
| 1X6J | crystal structure of ygfy from escherichia coli | ygfY | 2004-08-11 | 2005-02-08 | REL | none |
| 1MWQ | structure of hi0828, a hypothetical protein from haemophilus influenzae with a putative active-site phosphohistidine | HI0828 | 2002-09-30 | 2003-11-25 | REL | none |
| 1DBU | crystal structure of cysteinyl-trna(pro) deacylase protein from h. influenzae (hi1434) | HI1434 | 1999-11-03 | 2000-06-14 | REL | 1DBX |
| 1XAX | nmr structure of hi0004, a putative essential gene product from haemophilus influenzae | HI0004 | 2004-08-26 | 2005-01-18 | REL | none |
| 1NNX | structure of the hypothetical protein ygiw from e. coli. | ygiW | 2003-01-14 | 2004-03-09 | REL | none |
| 1NMN | structure of yqgf from escherichia coli, a hypothetical protein | yqgF | 2003-01-10 | 2004-03-02 | REL | 1NU0 |
| 1JN1 | structure of 2c-methyl-d-erythritol 2,4-cyclodiphosphate synthase from haemophilus influenzae (hi0671) | HI0671 | 2001-07-21 | 2002-08-21 | REL | none |
| 1J7H | solution structure of hi0719, a hypothetical protein from haemophilus influenzae | HI0719 | 2001-05-16 | 2003-02-11 | REL | none |
| 1JAL | ychf protein (hi0393) | HI0393 | 2001-05-30 | 2003-03-25 | REL | none |
| 1NIJ | yjia protein | yjiA | 2002-12-24 | 2003-06-24 | REL | none |
| 1NNG | structure of hi0827, a thioesterase acting on short-chain acyl-coa compounds. | HI0827 | 2003-01-13 | 2004-03-09 | Replaced by:1YLI | none |
Note 1: Last updated: Aug 21 2008
back to topSequence Redundancy Statistics
Table 5: Sequence Redundancy Statistics for S2F 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 | 335 | 309 | 174 | 117 | 45 | 1 | 1 | 43 |
| <90 | 335 | 309 | 174 | 117 | 45 | 1 | 1 | 43 |
| <70 | 333 | 307 | 172 | 116 | 45 | 1 | 1 | 43 |
| <50 | 319 | 298 | 167 | 113 | 45 | 1 | 1 | 43 |
| <30 | 290 | 282 | 163 | 112 | 45 | 1 | 1 | 43 |
| Last updated: 08-04-08 |
| 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 S2F 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 |
| <= 2000 | 2 | 1 | 50 |
| 2001 | 3 | 2 | 67 |
| 2002 | 8 | 4 | 50 |
| 2003 | 18 | 11 | 61 |
| 2004 | 13 | 8 | 62 |
| 2005 | 3 | 1 | 33 |
| 2006 | 2 | 0 | 0 |
| 2007 | 1 | 1 | 100 |
| 2008 | 1 | 1 | 100 |
| Total | 51 | 29 | 57 |
| Last updated:08-08-21 |
| 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 |