SCOP 1.73: Protein: Peptide deformylase

Lineage for Protein: Peptide deformylase

Root: SCOP 1.73
Class d: Alpha and beta proteins (a+b) [53931] (334 folds)
Fold d.167: Peptide deformylase [56419] (1 superfamily)
alpha-beta(5)-alpha; 3 layers: a/b/a; meander beta-sheet wraps around the C-terminal alpha-helix
Superfamily d.167.1: Peptide deformylase [56420] (1 family)
nickel-dependent enzyme
Family d.167.1.1: Peptide deformylase [56421] (1 protein)
Protein Peptide deformylase [56422] (9 species)

Species:

Bacillus stearothermophilus [TaxId:1422] [75580] (1 PDB entry)
- Domain for 1lqy:
  - Domain d1lqya_: 1lqy A: [74212]
    complexed with antibiotic actinonin
    complexed with bb2, ni
Escherichia coli [TaxId:562] [56423] (19 PDB entries)
1. Domains for 1bs4:
  1. Domain d1bs4a_: 1bs4 A: [42287]
  2. Domain d1bs4b_: 1bs4 B: [42288]
  3. Domain d1bs4c_: 1bs4 C: [42289]
    complexed with 2pe, so4, zn3
2. Domains for 1bs5:
  1. Domain d1bs5a_: 1bs5 A: [42296]
  2. Domain d1bs5b_: 1bs5 B: [42297]
  3. Domain d1bs5c_: 1bs5 C: [42298]
    complexed with so4, zn3
3. Domains for 1bs6:
  1. Domain d1bs6a_: 1bs6 A: [42290]
  2. Domain d1bs6b_: 1bs6 B: [42291]
  3. Domain d1bs6c_: 1bs6 C: [42292]
    complexed with ni1, ni2, so4
4. Domains for 1bs7:
  1. Domain d1bs7a_: 1bs7 A: [42299]
  2. Domain d1bs7b_: 1bs7 B: [42300]
  3. Domain d1bs7c_: 1bs7 C: [42301]
    complexed with ni1, so4
5. Domains for 1bs8:
  1. Domain d1bs8a_: 1bs8 A: [42293]
  2. Domain d1bs8b_: 1bs8 B: [42294]
  3. Domain d1bs8c_: 1bs8 C: [42295]
    complexed with so4, zn3, zno
6. Domain for 1bsj:
  - Domain d1bsja_: 1bsj A: [42302]
    complexed with co, mln, po4
7. Domain for 1bsk:
  - Domain d1bska_: 1bsk A: [42303]
    complexed with mln, po4, zn
8. Domains for 1bsz:
  1. Domain d1bsza_: 1bsz A: [42281]
  2. Domain d1bszb_: 1bsz B: [42282]
  3. Domain d1bszc_: 1bsz C: [42283]
    complexed with 2pe, of1, so4
9. Domain for 1def:
  - Domain d1defa_: 1def A: [42306]
    incorrect model(?)
    complexed with zn
10. Domain for 1dff:
  - Domain d1dffa_: 1dff A: [42304]
    complexed with zn
11. Domains for 1g27:
  1. Domain d1g27a_: 1g27 A: [65106]
  2. Domain d1g27b_: 1g27 B: [65107]
  3. Domain d1g27c_: 1g27 C: [65108]
    complexed with bb1, ni
12. Domains for 1g2a:
  1. Domain d1g2aa_: 1g2a A: [65109]
  2. Domain d1g2ab_: 1g2a B: [65110]
  3. Domain d1g2ac_: 1g2a C: [65111]
    complexed with bb2, ni
13. Domains for 1icj:
  1. Domain d1icja_: 1icj A: [42284]
  2. Domain d1icjb_: 1icj B: [42285]
  3. Domain d1icjc_: 1icj C: [42286]
    complexed with ni, pgo, so4
14. Domains for 1lru:
  1. Domain d1lrua_: 1lru A: [74228]
  2. Domain d1lrub_: 1lru B: [74229]
  3. Domain d1lruc_: 1lru C: [74230]
    complexed with antibiotic actinonin
    complexed with bb2, so4, zn
15. Domain for 1xem:
  - Domain d1xema1: 1xem A:1-164 [121911]
    automatically matched to d1bs4a_
    complexed with fmt, zn
16. Domain for 1xen:
  - Domain d1xena1: 1xen A:1-164 [121912]
    automatically matched to d1bs4a_
    complexed with fe, fmt
17. Domain for 1xeo:
  - Domain d1xeoa1: 1xeo A:1-164 [121913]
    automatically matched to d1bs4a_
    complexed with co, fmt
18. Domains for 2ai8:
  1. Domain d2ai8a1: 2ai8 A:1-164 [126819]
    automatically matched to d1bs4a_
    complexed with ni, sb7
  2. Domain d2ai8b1: 2ai8 B:1-164 [126820]
    automatically matched to d1bs4a_
    complexed with ni, sb7
  3. Domain d2ai8c1: 2ai8 C:1-164 [126821]
    automatically matched to d1bs4a_
    complexed with ni, sb7
19. Domain for 2def:
  - Domain d2defa_: 2def A: [42305]
    complexed with ni; mutant
Leptospira interrogans [TaxId:173] [103340] (1 PDB entry)
- Domains for 1y6h:
  1. Domain d1y6ha_: 1y6h A: [116505]
  2. Domain d1y6hb_: 1y6h B: [116506]
    complexed with cbx, gly, zn
Malaria parasite (Plasmodium falciparum) [TaxId:5833] [75581] (3 PDB entries)
1. Domains for 1jym:
  1. Domain d1jyma_: 1jym A: [71957]
  2. Domain d1jymb_: 1jym B: [71958]
  3. Domain d1jymc_: 1jym C: [71959]
  4. Domain d1jymd_: 1jym D: [71960]
  5. Domain d1jyme_: 1jym E: [71961]
  6. Domain d1jymf_: 1jym F: [71962]
  7. Domain d1jymg_: 1jym G: [71963]
  8. Domain d1jymh_: 1jym H: [71964]
  9. Domain d1jymi_: 1jym I: [71965]
  10. Domain d1jymj_: 1jym J: [71966]
    complexed with mse, ocl
2. Domains for 1rl4:
  1. Domain d1rl4a_: 1rl4 A: [97636]
  2. Domain d1rl4b_: 1rl4 B: [97637]
    complexed with bl5, brr, co
3. Domains for 1rqc:
  1. Domain d1rqca_: 1rqc A: [97732]
  2. Domain d1rqcb_: 1rqc B: [97733]
  3. Domain d1rqcc_: 1rqc C: [97734]
  4. Domain d1rqcd_: 1rqc D: [97735]
  5. Domain d1rqce_: 1rqc E: [97736]
  6. Domain d1rqcf_: 1rqc F: [97737]
  7. Domain d1rqcg_: 1rqc G: [97738]
  8. Domain d1rqch_: 1rqc H: [97739]
  9. Domain d1rqci_: 1rqc I: [97740]
  10. Domain d1rqcj_: 1rqc J: [97741]
    complexed with co
Pseudomonas aeruginosa [TaxId:287] [75578] (4 PDB entries)
1. Domains for 1ix1:
  1. Domain d1ix1a_: 1ix1 A: [90712]
  2. Domain d1ix1b_: 1ix1 B: [90713]
    complexed with antibiotic actinonin
    complexed with bb2, mha, zn
2. Domain for 1lry:
  - Domain d1lrya_: 1lry A: [74231]
    complexed with antibiotic actinonin
    complexed with bb2, zn
3. Domains for 1n5n:
  1. Domain d1n5na_: 1n5n A: [85336]
  2. Domain d1n5nb_: 1n5n B: [85337]
    complexed with gol, zn; mutant
4. Domains for 1s17:
  1. Domain d1s17a_: 1s17 A: [98335]
  2. Domain d1s17b_: 1s17 B: [98336]
    complexed with gnr, gol, ni
Staphylococcus aureus [TaxId:1280] [75579] (5 PDB entries)
1. Domains for 1lm4:
  1. Domain d1lm4a_: 1lm4 A: [84626]
  2. Domain d1lm4b_: 1lm4 B: [84627]
    complexed with csw, fe, gol
2. Domain for 1lmh:
  - Domain d1lmha_: 1lmh A: [74036]
    complexed with mse, zn; mutant
3. Domains for 1lqw:
  1. Domain d1lqwa_: 1lqw A: [74210]
  2. Domain d1lqwb_: 1lqw B: [74211]
    complexed with zn
4. Domain for 1q1y:
  - Domain d1q1ya_: 1q1y A: [104480]
    complexed with bb2, zn
5. Domains for 2ai9:
  1. Domain d2ai9a1: 2ai9 A:0-182 [126822]
    automatically matched to d1lm4a_
    complexed with ni, so4
  2. Domain d2ai9b1: 2ai9 B:0-182 [126823]
    automatically matched to d1lm4a_
    complexed with ni, so4
Streptococcus pneumoniae [TaxId:1313] [90057] (1 PDB entry)
- Domain for 1lm6:
  - Domain d1lm6a_: 1lm6 A: [84628]
    complexed with csw, fe, gol
Thermotoga maritima [TaxId:2336] [90058] (1 PDB entry)
- Domains for 1lme:
  1. Domain d1lmea_: 1lme A: [84629]
  2. Domain d1lmeb_: 1lme B: [84630]
    complexed with ocs
Thermus thermophilus [TaxId:274] [118165] (1 PDB entry)
- Domains for 1v3y:
  1. Domain d1v3ya_: 1v3y A: [113508]
  2. Domain d1v3yb_: 1v3y B: [113509]

More info for Protein Peptide deformylase from d.167.1.1: Peptide deformylase

Timeline for Protein Peptide deformylase from d.167.1.1: Peptide deformylase:

Protein Peptide deformylase from d.167.1.1: Peptide deformylase first appeared (with stable ids) in SCOP 1.55
Protein Peptide deformylase from d.167.1.1: Peptide deformylase appears in SCOP 1.71
Protein Peptide deformylase from d.167.1.1: Peptide deformylase appears in SCOP 1.75
Protein Peptide deformylase from d.167.1.1: Peptide deformylase appears in the current release, SCOPe 2.08