BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 024519
(266 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1ZXZ|A Chain A, X-Ray Structure Of Peptide Deformylase From Arabidopsis
Thaliana (Atpdf1a); Crystals Grown In Peg-5000 Mme As
Precipitant
pdb|1ZXZ|B Chain B, X-Ray Structure Of Peptide Deformylase From Arabidopsis
Thaliana (Atpdf1a); Crystals Grown In Peg-5000 Mme As
Precipitant
pdb|1ZY0|A Chain A, X-Ray Structure Of Peptide Deformylase From Arabidopsis
Thaliana (Atpdf1a); Crystals Grown In Peg-6000
pdb|1ZY0|B Chain B, X-Ray Structure Of Peptide Deformylase From Arabidopsis
Thaliana (Atpdf1a); Crystals Grown In Peg-6000
pdb|1ZY1|A Chain A, X-Ray Structure Of Peptide Deformylase From Arabidopsis
Thaliana (Atpdf1a) In Complex With Met-Ala-Ser
pdb|1ZY1|B Chain B, X-Ray Structure Of Peptide Deformylase From Arabidopsis
Thaliana (Atpdf1a) In Complex With Met-Ala-Ser
Length = 197
Score = 312 bits (799), Expect = 1e-85, Method: Compositional matrix adjust.
Identities = 149/188 (79%), Positives = 170/188 (90%)
Query: 75 LPEIVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRII 134
LPEIV +GDPVLHE AREVDPGEIGSERIQ IIDDM+KVMR APGVGLAAPQIGVPLRII
Sbjct: 3 LPEIVASGDPVLHEKAREVDPGEIGSERIQKIIDDMIKVMRLAPGVGLAAPQIGVPLRII 62
Query: 135 VLEDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVE 194
VLEDTKEYISY KEEI A +RR FDL++++NP LK++S++ ALFFEGCLSV+G+RA VE
Sbjct: 63 VLEDTKEYISYAPKEEILAQERRHFDLMVMVNPVLKERSNKKALFFEGCLSVDGFRAAVE 122
Query: 195 RYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKMVPKTFRIVENLDLPL 254
RYL++ VTG DR G+ I+V+A+GWQARILQHECDHLDG LYVDKMVP+TFR V+NLDLPL
Sbjct: 123 RYLEVVVTGYDRQGKRIEVNASGWQARILQHECDHLDGNLYVDKMVPRTFRTVDNLDLPL 182
Query: 255 AEGCPKLG 262
AEGCPKLG
Sbjct: 183 AEGCPKLG 190
>pdb|3G5K|A Chain A, Structure And Activity Of Human Mitochondrial Peptide
Deformylase, A Novel Cancer Target
pdb|3G5K|B Chain B, Structure And Activity Of Human Mitochondrial Peptide
Deformylase, A Novel Cancer Target
pdb|3G5K|C Chain C, Structure And Activity Of Human Mitochondrial Peptide
Deformylase, A Novel Cancer Target
pdb|3G5K|D Chain D, Structure And Activity Of Human Mitochondrial Peptide
Deformylase, A Novel Cancer Target
pdb|3G5P|A Chain A, Structure And Activity Of Human Mitochondrial Peptide
Deformylase, A Novel Cancer Target
pdb|3G5P|B Chain B, Structure And Activity Of Human Mitochondrial Peptide
Deformylase, A Novel Cancer Target
pdb|3G5P|C Chain C, Structure And Activity Of Human Mitochondrial Peptide
Deformylase, A Novel Cancer Target
pdb|3G5P|D Chain D, Structure And Activity Of Human Mitochondrial Peptide
Deformylase, A Novel Cancer Target
Length = 183
Score = 130 bits (326), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 67/168 (39%), Positives = 101/168 (60%), Gaps = 2/168 (1%)
Query: 78 IVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVLE 137
+ Q GDPVL A V+ ++G +Q + +V+VMR VGL+APQ+GVP +++ LE
Sbjct: 7 VCQVGDPVLRGVAAPVERAQLGGPELQRLTQRLVQVMRRRRCVGLSAPQLGVPRQVLALE 66
Query: 138 DTKEYISYQSKEEIKAFDR-RPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERY 196
E + + +A + PF L + +NP L+ R F EGC SV G+ A V R+
Sbjct: 67 -LPEALCRECPPRQRALRQMEPFPLRVFVNPSLRVLDSRLVTFPEGCESVAGFLACVPRF 125
Query: 197 LDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKMVPKTF 244
++++GLD +G+ + A+GW ARI+QHE DHL G L++DKM +TF
Sbjct: 126 QAVQISGLDPNGEQVVWQASGWAARIIQHEMDHLQGCLFIDKMDSRTF 173
>pdb|1SZZ|A Chain A, Crystal Structure Of Peptide Deformylase From Leptospira
Interrogans Complexed With Inhibitor Actinonin
pdb|1SZZ|B Chain B, Crystal Structure Of Peptide Deformylase From Leptospira
Interrogans Complexed With Inhibitor Actinonin
pdb|1SZZ|C Chain C, Crystal Structure Of Peptide Deformylase From Leptospira
Interrogans Complexed With Inhibitor Actinonin
pdb|1SZZ|D Chain D, Crystal Structure Of Peptide Deformylase From Leptospira
Interrogans Complexed With Inhibitor Actinonin
pdb|1SZZ|E Chain E, Crystal Structure Of Peptide Deformylase From Leptospira
Interrogans Complexed With Inhibitor Actinonin
pdb|1SZZ|F Chain F, Crystal Structure Of Peptide Deformylase From Leptospira
Interrogans Complexed With Inhibitor Actinonin
pdb|1SZZ|G Chain G, Crystal Structure Of Peptide Deformylase From Leptospira
Interrogans Complexed With Inhibitor Actinonin
pdb|1SZZ|H Chain H, Crystal Structure Of Peptide Deformylase From Leptospira
Interrogans Complexed With Inhibitor Actinonin
Length = 177
Score = 110 bits (275), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 69/178 (38%), Positives = 96/178 (53%), Gaps = 14/178 (7%)
Query: 77 EIVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVL 136
+I++ GDP+L + + V EI ++ + +I DM MR A GVGLAAPQIG+ +I+V+
Sbjct: 4 KILRMGDPILRKISEPVTEDEIQTKEFKKLIRDMFTTMRHAEGVGLAAPQIGILKQIVVV 63
Query: 137 --EDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVE 194
ED + Y E +ILNP + + T+ F+EGCLSV G R VE
Sbjct: 64 GSEDNERYPGTPDVPE-----------RIILNPVITPLTKDTSGFWEGCLSVPGMRGYVE 112
Query: 195 RYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKMV-PKTFRIVENLD 251
R I + +D G G++A + QHECDHL G LYVD++ K F E LD
Sbjct: 113 RPNQIRMQWMDEKGNQFDETIDGYKAIVYQHECDHLQGILYVDRLKDTKLFGFNETLD 170
>pdb|1Y6H|A Chain A, Crystal Structure Of Lipdf
pdb|1Y6H|B Chain B, Crystal Structure Of Lipdf
pdb|1SV2|A Chain A, Crystal Structure Of Peptide Deformylase From Leptospira
Interrogans (lipdf) At Ph7.5
pdb|1SV2|B Chain B, Crystal Structure Of Peptide Deformylase From Leptospira
Interrogans (lipdf) At Ph7.5
pdb|1VEV|A Chain A, Crystal Structure Of Peptide Deformylase From Leptospira
Interrogans (Lipdf) At Ph6.5
pdb|1VEV|B Chain B, Crystal Structure Of Peptide Deformylase From Leptospira
Interrogans (Lipdf) At Ph6.5
pdb|1VEY|A Chain A, Crystal Structure Of Peptide Deformylase From Leptospira
Interrogans (Lipdf) At Ph7.0
pdb|1VEY|B Chain B, Crystal Structure Of Peptide Deformylase From Leptospira
Interrogans (Lipdf) At Ph7.0
pdb|1VEZ|A Chain A, Crystal Structure Of Peptide Deformylase From Leptospira
Interrogans(lipdf) At Ph8.0
pdb|1VEZ|B Chain B, Crystal Structure Of Peptide Deformylase From Leptospira
Interrogans(lipdf) At Ph8.0
Length = 177
Score = 110 bits (275), Expect = 9e-25, Method: Compositional matrix adjust.
Identities = 69/178 (38%), Positives = 96/178 (53%), Gaps = 14/178 (7%)
Query: 77 EIVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVL 136
+I++ GDP+L + + V EI ++ + +I DM MR A GVGLAAPQIG+ +I+V+
Sbjct: 4 KILRMGDPILRKISEPVTEDEIQTKEFKKLIRDMFDTMRHAEGVGLAAPQIGILKQIVVV 63
Query: 137 --EDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVE 194
ED + Y E +ILNP + + T+ F+EGCLSV G R VE
Sbjct: 64 GSEDNERYPGTPDVPE-----------RIILNPVITPLTKDTSGFWEGCLSVPGMRGYVE 112
Query: 195 RYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKMV-PKTFRIVENLD 251
R I + +D G G++A + QHECDHL G LYVD++ K F E LD
Sbjct: 113 RPNQIRMQWMDEKGNQFDETIDGYKAIVYQHECDHLQGILYVDRLKDTKLFGFNETLD 170
>pdb|1N5N|A Chain A, Crystal Structure Of Peptide Deformylase From Pseudomonas
Aeruginosa
pdb|1N5N|B Chain B, Crystal Structure Of Peptide Deformylase From Pseudomonas
Aeruginosa
pdb|1S17|A Chain A, Identification Of Novel Potent Bicyclic Peptide
Deformylase Inhibitors
pdb|1S17|B Chain B, Identification Of Novel Potent Bicyclic Peptide
Deformylase Inhibitors
Length = 180
Score = 100 bits (248), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 58/162 (35%), Positives = 91/162 (56%), Gaps = 19/162 (11%)
Query: 78 IVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVLE 137
I++ DP L A+ P E+ + ++ +IDDM + M APG+GLAA Q+ V RI+V++
Sbjct: 18 ILEFPDPRLRTIAK---PVEVVDDAVRQLIDDMFETMYEAPGIGLAATQVNVHKRIVVMD 74
Query: 138 DTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERYL 197
+++ K E + F +NP+ + ++ + EGCLSV G+ V+R
Sbjct: 75 LSED------KSEPRVF----------INPEFEPLTEEMDQYQEGCLSVPGFYENVDRPQ 118
Query: 198 DIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKM 239
+ + LDRDG P + A G A +QHECDHL+G L+VD +
Sbjct: 119 KVRIKALDRDGNPFEEVAEGLLAVCIQHECDHLNGKLFVDYL 160
>pdb|1IX1|A Chain A, Crystal Structure Of P.Aeruginosa Peptide Deformylase
Complexed With Antibiotic Actinonin
pdb|1IX1|B Chain B, Crystal Structure Of P.Aeruginosa Peptide Deformylase
Complexed With Antibiotic Actinonin
Length = 171
Score = 99.8 bits (247), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 58/162 (35%), Positives = 91/162 (56%), Gaps = 19/162 (11%)
Query: 78 IVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVLE 137
I++ DP L A+ P E+ + ++ +IDDM + M APG+GLAA Q+ V RI+V++
Sbjct: 6 ILEFPDPRLRTIAK---PVEVVDDAVRQLIDDMFETMYEAPGIGLAATQVNVHKRIVVMD 62
Query: 138 DTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERYL 197
+++ K E + F +NP+ + ++ + EGCLSV G+ V+R
Sbjct: 63 LSED------KSEPRVF----------INPEFEPLTEDMDQYQEGCLSVPGFYENVDRPQ 106
Query: 198 DIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKM 239
+ + LDRDG P + A G A +QHECDHL+G L+VD +
Sbjct: 107 KVRIKALDRDGNPFEEVAEGLLAVCIQHECDHLNGKLFVDYL 148
>pdb|1LRY|A Chain A, Crystal Structure Of P. Aeruginosa Peptide Deformylase
Complexed With Antibiotic Actinonin
Length = 167
Score = 99.4 bits (246), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 58/162 (35%), Positives = 91/162 (56%), Gaps = 19/162 (11%)
Query: 78 IVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVLE 137
I++ DP L A+ P E+ + ++ +IDDM + M APG+GLAA Q+ V RI+V++
Sbjct: 5 ILEFPDPRLRTIAK---PVEVVDDAVRQLIDDMFETMYEAPGIGLAATQVNVHKRIVVMD 61
Query: 138 DTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERYL 197
+++ K E + F +NP+ + ++ + EGCLSV G+ V+R
Sbjct: 62 LSED------KSEPRVF----------INPEFEPLTEDMDQYQEGCLSVPGFYENVDRPQ 105
Query: 198 DIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKM 239
+ + LDRDG P + A G A +QHECDHL+G L+VD +
Sbjct: 106 KVRIKALDRDGNPFEEVAEGLLAVCIQHECDHLNGKLFVDYL 147
>pdb|3DLD|A Chain A, Crystal Structure Of Peptide Deformylase, Xoo1075, From
Xanthomonas Oryzae Pv. Oryzae Kacc10331
Length = 171
Score = 98.6 bits (244), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 63/175 (36%), Positives = 93/175 (53%), Gaps = 19/175 (10%)
Query: 77 EIVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVL 136
+I++ GD L A +V +GS + ++ DM + M +A GVGLAAPQI V L+++V
Sbjct: 4 DIIRMGDKRLLRVAPQVT--NLGSAELHALVSDMFETMGAAHGVGLAAPQIAVDLQLMVF 61
Query: 137 EDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERY 196
+++ E P L + N +++ SD +EGCLS+ G RAV+ RY
Sbjct: 62 -------GFEASERYPEAPAVP--LTALANAQIEPLSDEMENGWEGCLSIPGLRAVIPRY 112
Query: 197 LDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKMVPKTFRIVENLD 251
I G DG PI+ +A G+ AR++QHE DHL G LY + +EN D
Sbjct: 113 RYIRYRGFAPDGSPIEREAEGFHARVVQHEYDHLVGRLYPSR--------IENFD 159
>pdb|3M6O|A Chain A, Crystal Structure Of Arabidopsis Thaliana Peptide
Deformylase 1b (Atpdf1b)
pdb|3M6O|B Chain B, Crystal Structure Of Arabidopsis Thaliana Peptide
Deformylase 1b (Atpdf1b)
pdb|3M6P|A Chain A, Crystal Structure Of Arabidopsis Thaliana Peptide
Deformylase 1b (Atpdf1b) In Complex With Actinonin
pdb|3M6P|B Chain B, Crystal Structure Of Arabidopsis Thaliana Peptide
Deformylase 1b (Atpdf1b) In Complex With Actinonin
pdb|3O3J|A Chain A, Crystal Structure Of Arabidopsis Thaliana Peptide
Deformylase 1b (Atpdf1b) In Complex With Inhibitor 6b
pdb|3PN2|A Chain A, Crystal Structure Of Arabidopsis Thaliana Petide
Deformylase 1b (Atpdf1b) (Crystallized In Peg-550-Mme)
pdb|3PN3|A Chain A, Crystal Structure Of Arabidopsis Thaliana Petide
Deformylase 1b (Atpdf1b) In Complex With Inhibitor 21
pdb|3PN3|B Chain B, Crystal Structure Of Arabidopsis Thaliana Petide
Deformylase 1b (Atpdf1b) In Complex With Inhibitor 21
pdb|3PN4|A Chain A, Crystal Structure Of Arabidopsis Thaliana Petide
Deformylase 1b (Atpdf1b) In Complex With Actinonin
(Crystallized In Peg-550-Mme)
Length = 193
Score = 97.4 bits (241), Expect = 7e-21, Method: Compositional matrix adjust.
Identities = 57/164 (34%), Positives = 89/164 (54%), Gaps = 17/164 (10%)
Query: 77 EIVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVL 136
EIV+ DP+L + +D I E ++N++D M VM G+GL+APQ+G+ ++++V
Sbjct: 2 EIVEYPDPILRAKNKRID---IFDENLKNLVDAMFDVMYKTDGIGLSAPQVGLNVQLMVF 58
Query: 137 EDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERY 196
E + KE ++++NPK+KK SD+ F EGCLS G A V R
Sbjct: 59 NPAGE--PGEGKE------------IVLVNPKIKKYSDKLVPFDEGCLSFPGIYAEVVRP 104
Query: 197 LDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKMV 240
+++ D G+ + + ARI QHE DHL+G L+ D+M
Sbjct: 105 QSVKIDARDITGERFSISLSRLPARIFQHEYDHLEGVLFFDRMT 148
>pdb|3CPM|A Chain A, Plant Peptide Deformylase Pdf1b Crystal Structure
Length = 193
Score = 96.3 bits (238), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 56/164 (34%), Positives = 89/164 (54%), Gaps = 17/164 (10%)
Query: 77 EIVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVL 136
+IV+ DP+L + +D I E ++N++D M VM G+GL+APQ+G+ ++++V
Sbjct: 18 KIVEYPDPILRAKNKRID---IFDENLKNLVDAMFDVMYKTDGIGLSAPQVGLNVQLMVF 74
Query: 137 EDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERY 196
E + KE ++++NPK+KK SD+ F EGCLS G A V R
Sbjct: 75 NPAGE--PGEGKE------------IVLVNPKIKKYSDKLVPFDEGCLSFPGIYAEVVRP 120
Query: 197 LDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKMV 240
+++ D G+ + + ARI QHE DHL+G L+ D+M
Sbjct: 121 QSVKIDARDITGERFSISLSRLPARIFQHEYDHLEGVLFFDRMT 164
>pdb|4AZ4|A Chain A, E.Coli Deformylase With Co(Ii) And Hydrosulfide
Length = 186
Score = 95.9 bits (237), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 63/159 (39%), Positives = 94/159 (59%), Gaps = 22/159 (13%)
Query: 97 EIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVLEDTKEYISYQSKEEIKAFDR 156
E+ +E IQ I+DDM + M + G+GLAA Q+ + RIIV++ ++ D
Sbjct: 22 EVNAE-IQRIVDDMFETMYAEEGIGLAATQVDIHQRIIVIDVSENR------------DE 68
Query: 157 RPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERYLDIEVTGLDRDGQPIKVDAT 216
R L+++NP+L +KS T + EGCLS+ RA+V R +++ LDRDG+P +++A
Sbjct: 69 R----LVLINPELLEKSGETGIE-EGCLSIPEQRALVPRAEKVKIRALDRDGKPFELEAD 123
Query: 217 GWQARILQHECDHLDGTLYVDKMVP-KTFRI---VENLD 251
G A +QHE DHL G L++D + P K RI VE LD
Sbjct: 124 GLLAIXIQHEMDHLVGKLFMDYLSPLKQQRIRQKVEKLD 162
>pdb|4AL2|A Chain A, Peptide Deformylase (Ni-Form) With Hydrosulfide
pdb|4AL2|B Chain B, Peptide Deformylase (Ni-Form) With Hydrosulfide
pdb|4AL2|C Chain C, Peptide Deformylase (Ni-Form) With Hydrosulfide
Length = 186
Score = 95.5 bits (236), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 63/159 (39%), Positives = 94/159 (59%), Gaps = 22/159 (13%)
Query: 97 EIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVLEDTKEYISYQSKEEIKAFDR 156
E+ +E IQ I+DDM + M + G+GLAA Q+ + RIIV++ ++ D
Sbjct: 22 EVNAE-IQRIVDDMFETMYAEEGIGLAATQVDIHQRIIVIDVSENR------------DE 68
Query: 157 RPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERYLDIEVTGLDRDGQPIKVDAT 216
R L+++NP+L +KS T + EGCLS+ RA+V R +++ LDRDG+P +++A
Sbjct: 69 R----LVLINPELLEKSGETGIE-EGCLSIPEQRALVPRAEKVKIRALDRDGKPFELEAD 123
Query: 217 GWQARILQHECDHLDGTLYVDKMVP-KTFRI---VENLD 251
G A +QHE DHL G L++D + P K RI VE LD
Sbjct: 124 GLLAICIQHEMDHLVGKLFMDYLSPLKQQRIRQKVEKLD 162
>pdb|2W3T|A Chain A, Chloro Complex Of The Ni-Form Of E.Coli Deformylase
pdb|2W3U|A Chain A, Formate Complex Of The Ni-Form Of E.Coli Deformylase
Length = 188
Score = 95.5 bits (236), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 63/159 (39%), Positives = 94/159 (59%), Gaps = 22/159 (13%)
Query: 97 EIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVLEDTKEYISYQSKEEIKAFDR 156
E+ +E IQ I+DDM + M + G+GLAA Q+ + RIIV++ ++ D
Sbjct: 22 EVNAE-IQRIVDDMFETMYAEEGIGLAATQVDIHQRIIVIDVSENR------------DE 68
Query: 157 RPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERYLDIEVTGLDRDGQPIKVDAT 216
R L+++NP+L +KS T + EGCLS+ RA+V R +++ LDRDG+P +++A
Sbjct: 69 R----LVLINPELLEKSGETGIE-EGCLSIPEQRALVPRAEKVKIRALDRDGKPFELEAD 123
Query: 217 GWQARILQHECDHLDGTLYVDKMVP-KTFRI---VENLD 251
G A +QHE DHL G L++D + P K RI VE LD
Sbjct: 124 GLLAICIQHEMDHLVGKLFMDYLSPLKQQRIRQKVEKLD 162
>pdb|3K6L|A Chain A, The Structure Of E.Coli Peptide Deformylase (Pdf) In
Complex With Peptidomimetic Ligand Bb2827
pdb|3K6L|B Chain B, The Structure Of E.Coli Peptide Deformylase (Pdf) In
Complex With Peptidomimetic Ligand Bb2827
pdb|3K6L|C Chain C, The Structure Of E.Coli Peptide Deformylase (Pdf) In
Complex With Peptidomimetic Ligand Bb2827
Length = 169
Score = 95.1 bits (235), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 67/175 (38%), Positives = 98/175 (56%), Gaps = 25/175 (14%)
Query: 85 VLHEPAREV----DPGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVLEDTK 140
VLH P + P E + IQ I+DDM + M + G+GLAA Q+ + RIIV++ ++
Sbjct: 6 VLHIPDERLRKVAKPVEEVNAEIQRIVDDMFETMYAEEGIGLAATQVDIHQRIIVIDVSE 65
Query: 141 EYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERYLDIE 200
D R L+++NP+L +KS T + EGCLS+ RA+V R ++
Sbjct: 66 NR------------DER----LVLINPELLEKSGETGIE-EGCLSIPEQRALVPRAEKVK 108
Query: 201 VTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKMVP-KTFRI---VENLD 251
+ LDRDG+P +++A G A +QHE DHL G L++D + P K RI VE LD
Sbjct: 109 IRALDRDGKPFELEADGLLAICIQHEMDHLVGKLFMDYLSPLKQQRIRQKVEKLD 163
>pdb|1ICJ|A Chain A, Pdf Protein Is Crystallized As Ni2+ Containing Form,
Cocrystallized With Inhibitor Polyethylene Glycol (Peg)
pdb|1ICJ|B Chain B, Pdf Protein Is Crystallized As Ni2+ Containing Form,
Cocrystallized With Inhibitor Polyethylene Glycol (Peg)
pdb|1ICJ|C Chain C, Pdf Protein Is Crystallized As Ni2+ Containing Form,
Cocrystallized With Inhibitor Polyethylene Glycol (Peg)
pdb|1BS4|A Chain A, Peptide Deformylase As Zn2+ Containing Form (Native) In
Complex With Inhibitor Polyethylene Glycol
pdb|1BS4|B Chain B, Peptide Deformylase As Zn2+ Containing Form (Native) In
Complex With Inhibitor Polyethylene Glycol
pdb|1BS4|C Chain C, Peptide Deformylase As Zn2+ Containing Form (Native) In
Complex With Inhibitor Polyethylene Glycol
pdb|1BS5|A Chain A, Peptide Deformylase As Zn2+ Containing Form
pdb|1BS5|B Chain B, Peptide Deformylase As Zn2+ Containing Form
pdb|1BS5|C Chain C, Peptide Deformylase As Zn2+ Containing Form
pdb|1BS6|A Chain A, Peptide Deformylase As Ni2+ Containing Form In Complex
With Tripeptide Met-Ala-Ser
pdb|1BS6|B Chain B, Peptide Deformylase As Ni2+ Containing Form In Complex
With Tripeptide Met-Ala-Ser
pdb|1BS6|C Chain C, Peptide Deformylase As Ni2+ Containing Form In Complex
With Tripeptide Met-Ala-Ser
pdb|1BS7|A Chain A, Peptide Deformylase As Ni2+ Containing Form
pdb|1BS7|B Chain B, Peptide Deformylase As Ni2+ Containing Form
pdb|1BS7|C Chain C, Peptide Deformylase As Ni2+ Containing Form
pdb|1BS8|A Chain A, Peptide Deformylase As Zn2+ Containing Form In Complex
With Tripeptide Met-Ala-Ser
pdb|1BS8|B Chain B, Peptide Deformylase As Zn2+ Containing Form In Complex
With Tripeptide Met-Ala-Ser
pdb|1BS8|C Chain C, Peptide Deformylase As Zn2+ Containing Form In Complex
With Tripeptide Met-Ala-Ser
pdb|1BSZ|A Chain A, Peptide Deformylase As Fe2+ Containing Form (Native) In
Complex With Inhibitor Polyethylene Glycol
pdb|1BSZ|B Chain B, Peptide Deformylase As Fe2+ Containing Form (Native) In
Complex With Inhibitor Polyethylene Glycol
pdb|1BSZ|C Chain C, Peptide Deformylase As Fe2+ Containing Form (Native) In
Complex With Inhibitor Polyethylene Glycol
pdb|1BSJ|A Chain A, Cobalt Deformylase Inhibitor Complex From E.Coli
pdb|1BSK|A Chain A, Zinc Deformylase Inhibitor Complex From E.Coli
pdb|1G27|A Chain A, Crystal Structure Of E.Coli Polypeptide Deformylase
Complexed With The Inhibitor Bb-3497
pdb|1G27|B Chain B, Crystal Structure Of E.Coli Polypeptide Deformylase
Complexed With The Inhibitor Bb-3497
pdb|1G27|C Chain C, Crystal Structure Of E.Coli Polypeptide Deformylase
Complexed With The Inhibitor Bb-3497
pdb|1G2A|A Chain A, The Crystal Structure Of E.Coli Peptide Deformylase
Complexed With Actinonin
pdb|1G2A|B Chain B, The Crystal Structure Of E.Coli Peptide Deformylase
Complexed With Actinonin
pdb|1G2A|C Chain C, The Crystal Structure Of E.Coli Peptide Deformylase
Complexed With Actinonin
pdb|1LRU|A Chain A, Crystal Structure Of E.Coli Peptide Deformylase Complexed
With Antibiotic Actinonin
pdb|1LRU|B Chain B, Crystal Structure Of E.Coli Peptide Deformylase Complexed
With Antibiotic Actinonin
pdb|1LRU|C Chain C, Crystal Structure Of E.Coli Peptide Deformylase Complexed
With Antibiotic Actinonin
pdb|1XEM|A Chain A, High Resolution Crystal Structure Of Escherichia Coli
Zinc- Peptide Deformylase Bound To Formate
pdb|1XEN|A Chain A, High Resolution Crystal Structure Of Escherichia Coli
Iron- Peptide Deformylase Bound To Formate
pdb|1XEO|A Chain A, High Resolution Crystals Structure Of Cobalt- Peptide
Deformylase Bound To Formate
pdb|2AI8|A Chain A, E.Coli Polypeptide Deformylase Complexed With Sb-485343
pdb|2AI8|B Chain B, E.Coli Polypeptide Deformylase Complexed With Sb-485343
pdb|2AI8|C Chain C, E.Coli Polypeptide Deformylase Complexed With Sb-485343
Length = 168
Score = 95.1 bits (235), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 63/159 (39%), Positives = 94/159 (59%), Gaps = 22/159 (13%)
Query: 97 EIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVLEDTKEYISYQSKEEIKAFDR 156
E+ +E IQ I+DDM + M + G+GLAA Q+ + RIIV++ ++ D
Sbjct: 22 EVNAE-IQRIVDDMFETMYAEEGIGLAATQVDIHQRIIVIDVSENR------------DE 68
Query: 157 RPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERYLDIEVTGLDRDGQPIKVDAT 216
R L+++NP+L +KS T + EGCLS+ RA+V R +++ LDRDG+P +++A
Sbjct: 69 R----LVLINPELLEKSGETGIE-EGCLSIPEQRALVPRAEKVKIRALDRDGKPFELEAD 123
Query: 217 GWQARILQHECDHLDGTLYVDKMVP-KTFRI---VENLD 251
G A +QHE DHL G L++D + P K RI VE LD
Sbjct: 124 GLLAICIQHEMDHLVGKLFMDYLSPLKQQRIRQKVEKLD 162
>pdb|1DFF|A Chain A, Peptide Deformylase
Length = 164
Score = 94.7 bits (234), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 67/175 (38%), Positives = 98/175 (56%), Gaps = 25/175 (14%)
Query: 85 VLHEPAREV----DPGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVLEDTK 140
VLH P + P E + IQ I+DDM + M + G+GLAA Q+ + RIIV++ ++
Sbjct: 5 VLHIPDERLRKVAKPVEEVNAEIQRIVDDMFETMYAEEGIGLAATQVDIHQRIIVIDVSE 64
Query: 141 EYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERYLDIE 200
D R L+++NP+L +KS T + EGCLS+ RA+V R ++
Sbjct: 65 NR------------DER----LVLINPELLEKSGETGIE-EGCLSIPEQRALVPRAEKVK 107
Query: 201 VTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKMVP-KTFRI---VENLD 251
+ LDRDG+P +++A G A +QHE DHL G L++D + P K RI VE LD
Sbjct: 108 IRALDRDGKPFELEADGLLAICIQHEMDHLVGKLFMDYLSPLKQQRIRQKVEKLD 162
>pdb|3M6Q|A Chain A, Crystal Structure Of Arabidopsis Thaliana Peptide
Deformylase 1b (Atpdf1b) G41q Mutant In Complex With
Actinonin
pdb|3PN5|A Chain A, Crystal Structure Of Arabidopsis Thaliana Petide
Deformylase 1b (Atpdf1b) G41q Mutant
Length = 193
Score = 94.4 bits (233), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 56/164 (34%), Positives = 88/164 (53%), Gaps = 17/164 (10%)
Query: 77 EIVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVL 136
EIV+ DP+L + +D I E ++N++D M VM +GL+APQ+G+ ++++V
Sbjct: 2 EIVEYPDPILRAKNKRID---IFDENLKNLVDAMFDVMYKTDQIGLSAPQVGLNVQLMVF 58
Query: 137 EDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERY 196
E + KE ++++NPK+KK SD+ F EGCLS G A V R
Sbjct: 59 NPAGE--PGEGKE------------IVLVNPKIKKYSDKLVPFDEGCLSFPGIYAEVVRP 104
Query: 197 LDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKMV 240
+++ D G+ + + ARI QHE DHL+G L+ D+M
Sbjct: 105 QSVKIDARDITGERFSISLSRLPARIFQHEYDHLEGVLFFDRMT 148
>pdb|3M6R|A Chain A, Crystal Structure Of Arabidopsis Thaliana Peptide
Deformylase 1b (Atpdf1b) G41m Mutant In Complex With
Actinonin
pdb|3M6R|B Chain B, Crystal Structure Of Arabidopsis Thaliana Peptide
Deformylase 1b (Atpdf1b) G41m Mutant In Complex With
Actinonin
pdb|3M6R|C Chain C, Crystal Structure Of Arabidopsis Thaliana Peptide
Deformylase 1b (Atpdf1b) G41m Mutant In Complex With
Actinonin
pdb|3M6R|D Chain D, Crystal Structure Of Arabidopsis Thaliana Peptide
Deformylase 1b (Atpdf1b) G41m Mutant In Complex With
Actinonin
pdb|3PN6|A Chain A, Crystal Structure Of Arabidopsis Thaliana Petide
Deformylase 1b (Atpdf1b) G41m Mutant
pdb|3PN6|B Chain B, Crystal Structure Of Arabidopsis Thaliana Petide
Deformylase 1b (Atpdf1b) G41m Mutant
Length = 193
Score = 94.0 bits (232), Expect = 7e-20, Method: Compositional matrix adjust.
Identities = 56/164 (34%), Positives = 88/164 (53%), Gaps = 17/164 (10%)
Query: 77 EIVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVL 136
EIV+ DP+L + +D I E ++N++D M VM +GL+APQ+G+ ++++V
Sbjct: 2 EIVEYPDPILRAKNKRID---IFDENLKNLVDAMFDVMYKTDMIGLSAPQVGLNVQLMVF 58
Query: 137 EDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERY 196
E + KE ++++NPK+KK SD+ F EGCLS G A V R
Sbjct: 59 NPAGE--PGEGKE------------IVLVNPKIKKYSDKLVPFDEGCLSFPGIYAEVVRP 104
Query: 197 LDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKMV 240
+++ D G+ + + ARI QHE DHL+G L+ D+M
Sbjct: 105 QSVKIDARDITGERFSISLSRLPARIFQHEYDHLEGVLFFDRMT 148
>pdb|3QU1|A Chain A, Peptide Deformylase From Vibrio Cholerae
pdb|3QU1|B Chain B, Peptide Deformylase From Vibrio Cholerae
Length = 171
Score = 94.0 bits (232), Expect = 8e-20, Method: Compositional matrix adjust.
Identities = 60/166 (36%), Positives = 95/166 (57%), Gaps = 22/166 (13%)
Query: 77 EIVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAP-GVGLAAPQIGVPLRIIV 135
EI+ A DP L +++V ++ S +Q +IDD++ + + G+GLAAPQ+G I+V
Sbjct: 8 EILTAPDPRLRVQSKQV--TDVAS--VQTLIDDLLDTLYATDNGIGLAAPQVGREEAIVV 63
Query: 136 LEDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVER 195
I D R L++I NPK+ S++ + EGCLSV Y A VER
Sbjct: 64 ---------------IDLSDNRDQPLVLI-NPKVVSGSNKE-MGQEGCLSVPDYYADVER 106
Query: 196 YLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKMVP 241
Y + V LDR+G+P++++ + + A ++QHE DHL G L++D + P
Sbjct: 107 YTSVVVEALDREGKPLRIETSDFLAIVMQHEIDHLSGNLFIDYLSP 152
>pdb|4DR9|A Chain A, Crystal Structure Of A Peptide Deformylase From
Synechococcus Elongatus In Complex With Actinonin
pdb|4DR9|B Chain B, Crystal Structure Of A Peptide Deformylase From
Synechococcus Elongatus In Complex With Actinonin
pdb|4DR9|C Chain C, Crystal Structure Of A Peptide Deformylase From
Synechococcus Elongatus In Complex With Actinonin
pdb|4DR9|D Chain D, Crystal Structure Of A Peptide Deformylase From
Synechococcus Elongatus In Complex With Actinonin
Length = 192
Score = 92.0 bits (227), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 68/194 (35%), Positives = 107/194 (55%), Gaps = 19/194 (9%)
Query: 59 SKAGWLLGLGQNKKAKLP-EIVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSA 117
S A + + + K AK P ++ GD VL +PA+ V I E ++ I M++ M SA
Sbjct: 1 STAAVAIRVAKKKLAKPPLDLHYLGDRVLRQPAKRV--SRIDDE-LRQTIRQMLQTMYSA 57
Query: 118 PGVGLAAPQIGVPLRIIVLEDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTA 177
G+GLAAPQ+G+ ++IV++ E++ P L+++NPK+++ +
Sbjct: 58 DGIGLAAPQVGINKQLIVID-----------LELEDEQAPP---LVLINPKIERTAGDLE 103
Query: 178 LFFEGCLSVNGYRAVVERYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVD 237
EGCLS+ G VER +EV+ D +G+P ++ A G AR +QHE DHL+G L+VD
Sbjct: 104 QCQEGCLSIPGVYLDVERPEIVEVSYKDENGRPQRLVADGLLARCIQHEMDHLNGVLFVD 163
Query: 238 KMVPKTFRIVENLD 251
+ V + E LD
Sbjct: 164 R-VENRLELNEALD 176
>pdb|2DEF|A Chain A, Peptide Deformylase Catalytic Core (Residues 1-147), Nmr,
20 Structures
Length = 147
Score = 91.7 bits (226), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 55/145 (37%), Positives = 85/145 (58%), Gaps = 17/145 (11%)
Query: 95 PGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVLEDTKEYISYQSKEEIKAF 154
P E + IQ I+DDM + M + G+GLAA Q+ + RIIV++ ++
Sbjct: 19 PVEEVNAEIQRIVDDMFETMYAEEGIGLAATQVDIHQRIIVIDVSENR------------ 66
Query: 155 DRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERYLDIEVTGLDRDGQPIKVD 214
D R L+++NP+L +KS T + EGCLS+ RA+V R +++ LDRDG+P +++
Sbjct: 67 DER----LVLINPELLEKSGETGIE-EGCLSIPEQRALVPRAEKVKIRALDRDGKPFELE 121
Query: 215 ATGWQARILQHECDHLDGTLYVDKM 239
A G A +QHE DHL G L++D +
Sbjct: 122 ADGLLAICIQHEMDHLVGKLFMDYL 146
>pdb|1DEF|A Chain A, Peptide Deformylase Catalytic Core (Residues 1-147), Nmr,
9 Structures
pdb|2KMN|A Chain A, Solution Structure Of Peptide Deformylase Complexed With
Actinonin
Length = 147
Score = 91.7 bits (226), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 55/145 (37%), Positives = 85/145 (58%), Gaps = 17/145 (11%)
Query: 95 PGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVLEDTKEYISYQSKEEIKAF 154
P E + IQ I+DDM + M + G+GLAA Q+ + RIIV++ ++
Sbjct: 19 PVEEVNAEIQRIVDDMFETMYAEEGIGLAATQVDIHQRIIVIDVSENR------------ 66
Query: 155 DRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERYLDIEVTGLDRDGQPIKVD 214
D R L+++NP+L +KS T + EGCLS+ RA+V R +++ LDRDG+P +++
Sbjct: 67 DER----LVLINPELLEKSGETGIE-EGCLSIPEQRALVPRAEKVKIRALDRDGKPFELE 121
Query: 215 ATGWQARILQHECDHLDGTLYVDKM 239
A G A +QHE DHL G L++D +
Sbjct: 122 ADGLLAICIQHEMDHLVGKLFMDYL 146
>pdb|4AL3|A Chain A, Peptide Deformylase (Co-Form) With Mercaptoethanol
Length = 186
Score = 91.3 bits (225), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 62/159 (38%), Positives = 93/159 (58%), Gaps = 22/159 (13%)
Query: 97 EIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVLEDTKEYISYQSKEEIKAFDR 156
E+ +E IQ I+DDM + M + G+GLAA Q+ + RIIV++ ++ D
Sbjct: 22 EVNAE-IQRIVDDMFETMYAEEGIGLAATQVDIHQRIIVIDVSENR------------DE 68
Query: 157 RPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERYLDIEVTGLDRDGQPIKVDAT 216
R L+++NP+L +KS T + EG LS+ RA+V R +++ LDRDG+P +++A
Sbjct: 69 R----LVLINPELLEKSGETGIE-EGXLSIPEQRALVPRAEKVKIRALDRDGKPFELEAD 123
Query: 217 GWQARILQHECDHLDGTLYVDKMVP-KTFRI---VENLD 251
G A +QHE DHL G L++D + P K RI VE LD
Sbjct: 124 GLLAICIQHEMDHLVGKLFMDYLSPLKQQRIRQKVEKLD 162
>pdb|3OCA|A Chain A, Crystal Structure Of Peptide Deformylase From Ehrlichia
Chaffeensis
pdb|3OCA|B Chain B, Crystal Structure Of Peptide Deformylase From Ehrlichia
Chaffeensis
Length = 209
Score = 90.1 bits (222), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 54/142 (38%), Positives = 79/142 (55%), Gaps = 9/142 (6%)
Query: 101 ERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVL------EDTKEYISYQSKEEIKAF 154
+ I+ ++DDM + M + G+GLAA Q+GV RI+V+ ED+++ + + K E
Sbjct: 47 QSIRKLVDDMFETMHANQGLGLAAVQVGVHKRILVMNVPEEFEDSEDIENVEDKIEGYEL 106
Query: 155 DRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERYLDIEVTGLDRDGQPIKVD 214
P+ I+NPK+ S EGCLSV GY + R I V LD +G +
Sbjct: 107 YGGPY---CIINPKIVDISQEKVKLKEGCLSVPGYFDYIVRPQRIAVQYLDYNGNECIIK 163
Query: 215 ATGWQARILQHECDHLDGTLYV 236
A GW AR LQHE DHL+GT+++
Sbjct: 164 AQGWLARCLQHEIDHLNGTVFL 185
>pdb|3U04|A Chain A, Crystal Structure Of Peptide Deformylase From Ehrlichia
Chaffeensis In Complex With Actinonin
Length = 190
Score = 90.1 bits (222), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 54/142 (38%), Positives = 79/142 (55%), Gaps = 9/142 (6%)
Query: 101 ERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVL------EDTKEYISYQSKEEIKAF 154
+ I+ ++DDM + M + G+GLAA Q+GV RI+V+ ED+++ + + K E
Sbjct: 28 QSIRKLVDDMFETMHANQGLGLAAVQVGVHKRILVMNVPEEFEDSEDIENVEDKIEGYEL 87
Query: 155 DRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERYLDIEVTGLDRDGQPIKVD 214
P+ I+NPK+ S EGCLSV GY + R I V LD +G +
Sbjct: 88 YGGPY---CIINPKIVDISQEKVKLKEGCLSVPGYFDYIVRPQRIAVQYLDYNGNECIIK 144
Query: 215 ATGWQARILQHECDHLDGTLYV 236
A GW AR LQHE DHL+GT+++
Sbjct: 145 AQGWLARCLQHEIDHLNGTVFL 166
>pdb|3E3U|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Peptide
Deformylase In Complex With Inhibitor
Length = 197
Score = 88.2 bits (217), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 63/187 (33%), Positives = 85/187 (45%), Gaps = 19/187 (10%)
Query: 82 GDPVLHEPAREVDPGEIGS--ERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVLEDT 139
GDPVLH V GS + +I M M +A GVGLAA QIG LR+ V +
Sbjct: 10 GDPVLHTATTPVTVAADGSLPADLAQLIATMYDTMDAANGVGLAANQIGCSLRLFVYDCA 69
Query: 140 KEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTAL-----FFEGCLSVNGYRAVVE 194
+ + + ++NP L+ + EGCLSV G
Sbjct: 70 ADRAMTARRRGV------------VINPVLETSEIPETMPDPDTDDEGCLSVPGESFPTG 117
Query: 195 RYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKMVPKTFRIVENLDLPL 254
R VTGLD DG P+ ++ TG AR+LQHE HLDG LY+D+++ + R +
Sbjct: 118 RAKWARVTGLDADGSPVSIEGTGLFARMLQHETGHLDGFLYLDRLIGRYARNAKRAVKSH 177
Query: 255 AEGCPKL 261
G P L
Sbjct: 178 GWGVPGL 184
>pdb|3UWA|A Chain A, Crystal Structure Of A Probable Peptide Deformylase From
Synechococcus Phage S-Ssm7
pdb|3UWB|A Chain A, Crystal Structure Of A Probable Peptide Deformylase From
Strucynechococcus Phage S-Ssm7 In Complex With Actinonin
Length = 154
Score = 87.4 bits (215), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 57/162 (35%), Positives = 83/162 (51%), Gaps = 19/162 (11%)
Query: 82 GDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVL-EDTK 140
GD L + + EV E + + D + ++ G+GLAAPQ+G+ R+IV+ E T+
Sbjct: 9 GDRCLRQKSEEV---EFDKKEXSELYDQXCEAXWASDGIGLAAPQVGINKRVIVVDETTE 65
Query: 141 EYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERYLDIE 200
E+ Y + +NPK+ KS+ LF EGCLSV V R I+
Sbjct: 66 EHGKYAH---------------LXVNPKITWKSEEKVLFDEGCLSVPDQNGEVLRPKSIK 110
Query: 201 VTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKMVPK 242
VT ++DG+ K G AR++QHE DHL+G L+VD K
Sbjct: 111 VTFQNKDGKYKKWKLDGLAARVVQHEIDHLEGILFVDYFNDK 152
>pdb|3FWX|A Chain A, The Crystal Structure Of The Peptide Deformylase From
Vibrio Cholerae O1 Biovar El Tor Str. N16961
pdb|3FWX|B Chain B, The Crystal Structure Of The Peptide Deformylase From
Vibrio Cholerae O1 Biovar El Tor Str. N16961
Length = 169
Score = 84.3 bits (207), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 57/158 (36%), Positives = 85/158 (53%), Gaps = 18/158 (11%)
Query: 95 PGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVLEDTKEYISYQSKEEIKAF 154
P E + IQ I+DD ++ + G+GLAA Q+ + RI+V++ I
Sbjct: 20 PVEQVTPEIQQIVDDXLETXYAEEGIGLAATQVDIHQRIVVID-------------ISET 66
Query: 155 DRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERYLDIEVTGLDRDGQPIKVD 214
+P +++NP++ +K + EGCLSV G RA+V R ++ V LDR+GQ + D
Sbjct: 67 RDQP---XVLINPEIIEKRGEDGIE-EGCLSVPGARALVPRAAEVTVKALDRNGQEYQFD 122
Query: 215 ATGWQARILQHECDHLDGTLYVDKMVP-KTFRIVENLD 251
A A +QHE DHL G L+VD + P K RI E L+
Sbjct: 123 ADDLLAICVQHELDHLAGKLFVDYLSPLKRNRIKEKLE 160
>pdb|2EW5|A Chain A, Structure Of Helicobacter Pylori Peptide Deformylase In
Complex With Inhibitor
pdb|2EW6|A Chain A, Structure Of Helicobacter Pylori Peptide Deformylase In
Complex With Inhibitor
pdb|2EW7|A Chain A, Crystal Structure Of Helicobacter Pylori Peptide
Deformylase
Length = 181
Score = 84.3 bits (207), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 54/165 (32%), Positives = 93/165 (56%), Gaps = 15/165 (9%)
Query: 75 LPEIVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRII 134
L EI+ +L ++EV + ++ +DDM + M ++ G+GLAA Q+G+PLR++
Sbjct: 2 LLEIIHYPSKILRTISKEVVSFD---AKLHQQLDDMYETMIASEGIGLAAIQVGLPLRML 58
Query: 135 VLEDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVE 194
++ +E Q KE D L I+NPK + + + ++ EGCLSV G+ VE
Sbjct: 59 IINLPQED-GVQHKE----------DCLEIINPKFIE-TGGSMMYKEGCLSVPGFYEEVE 106
Query: 195 RYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKM 239
R+ +++ +R + ++A+ A +QHE DHL+G L+VDK+
Sbjct: 107 RFEKVKIEYQNRFAEVKVLEASELLAVAIQHEIDHLNGVLFVDKL 151
>pdb|1RL4|A Chain A, Plasmodium Falciparum Peptide Deformylase Complex With
Inhibitor
pdb|1RL4|B Chain B, Plasmodium Falciparum Peptide Deformylase Complex With
Inhibitor
Length = 188
Score = 82.4 bits (202), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 56/173 (32%), Positives = 91/173 (52%), Gaps = 17/173 (9%)
Query: 67 LGQNKKAKLPEIVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQ 126
+ +N+K ++ +IV+ DP+L + EV + + ++ ++ M +M + G+GL+APQ
Sbjct: 1 MSKNEKDEI-KIVKYPDPILRRRSEEVTNFD---DNLKRVVRKMFDIMYESKGIGLSAPQ 56
Query: 127 IGVPLRIIVLEDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFFEGCLSV 186
+ + RIIV E + KEE + R F +NP + ++S EGCLS
Sbjct: 57 VNISKRIIVWNALYE----KRKEE----NERIF-----INPSIVEQSLVKLKLIEGCLSF 103
Query: 187 NGYRAVVERYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKM 239
G VER + ++ D +G G +RI QHE DHL+GTL++DKM
Sbjct: 104 PGIEGKVERPSIVSISYYDINGYKHLKILKGIHSRIFQHEFDHLNGTLFIDKM 156
>pdb|1V3Y|A Chain A, The Crystal Structure Of Peptide Deformylase From Thermus
Thermophilus Hb8
pdb|1V3Y|B Chain B, The Crystal Structure Of Peptide Deformylase From Thermus
Thermophilus Hb8
Length = 192
Score = 76.6 bits (187), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 55/161 (34%), Positives = 85/161 (52%), Gaps = 13/161 (8%)
Query: 82 GDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVLEDTKE 141
GDPVL AR V+ I+ + +DM++ M A GVGLAAPQIG+ R+ V + +
Sbjct: 9 GDPVLRRKARPVE----DFSGIKRLAEDMLETMFEAKGVGLAAPQIGLSQRLFVAVEYAD 64
Query: 142 YISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALF--FEGCLSVNG-YRAVVERYLD 198
+ + ++ RR + ++ NP + + R L EG LS+ G Y V R
Sbjct: 65 EPEGEEERPLRELVRRVY---VVANPVI---TYREGLVEGTEGXLSLPGLYSEEVPRAER 118
Query: 199 IEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKM 239
I V D +G+ ++ G+ AR+ QHE DHLDG L+ +++
Sbjct: 119 IRVEYQDEEGRGRVLELEGYMARVFQHEIDHLDGILFFERL 159
>pdb|1RQC|A Chain A, Crystals Of Peptide Deformylase From Plasmodium Falciparum
With Ten Subunits Per Asymmetric Unit Reveal Critical
Characteristics Of The Active Site For Drug Design
pdb|1RQC|B Chain B, Crystals Of Peptide Deformylase From Plasmodium Falciparum
With Ten Subunits Per Asymmetric Unit Reveal Critical
Characteristics Of The Active Site For Drug Design
pdb|1RQC|C Chain C, Crystals Of Peptide Deformylase From Plasmodium Falciparum
With Ten Subunits Per Asymmetric Unit Reveal Critical
Characteristics Of The Active Site For Drug Design
pdb|1RQC|D Chain D, Crystals Of Peptide Deformylase From Plasmodium Falciparum
With Ten Subunits Per Asymmetric Unit Reveal Critical
Characteristics Of The Active Site For Drug Design
pdb|1RQC|E Chain E, Crystals Of Peptide Deformylase From Plasmodium Falciparum
With Ten Subunits Per Asymmetric Unit Reveal Critical
Characteristics Of The Active Site For Drug Design
pdb|1RQC|F Chain F, Crystals Of Peptide Deformylase From Plasmodium Falciparum
With Ten Subunits Per Asymmetric Unit Reveal Critical
Characteristics Of The Active Site For Drug Design
pdb|1RQC|G Chain G, Crystals Of Peptide Deformylase From Plasmodium Falciparum
With Ten Subunits Per Asymmetric Unit Reveal Critical
Characteristics Of The Active Site For Drug Design
pdb|1RQC|H Chain H, Crystals Of Peptide Deformylase From Plasmodium Falciparum
With Ten Subunits Per Asymmetric Unit Reveal Critical
Characteristics Of The Active Site For Drug Design
pdb|1RQC|I Chain I, Crystals Of Peptide Deformylase From Plasmodium Falciparum
With Ten Subunits Per Asymmetric Unit Reveal Critical
Characteristics Of The Active Site For Drug Design
pdb|1RQC|J Chain J, Crystals Of Peptide Deformylase From Plasmodium Falciparum
With Ten Subunits Per Asymmetric Unit Reveal Critical
Characteristics Of The Active Site For Drug Design
Length = 185
Score = 73.2 bits (178), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 51/162 (31%), Positives = 81/162 (50%), Gaps = 16/162 (9%)
Query: 77 EIVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVL 136
+IV+ DP+L + EV + + ++ ++ + + G+GL+APQ+ + RIIV
Sbjct: 4 KIVKYPDPILRRRSEEVTNFD---DNLKRVVRKXFDIXYESKGIGLSAPQVNISKRIIVW 60
Query: 137 EDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERY 196
E + KEE + R F +NP + ++S EGCLS G VER
Sbjct: 61 NALYE----KRKEE----NERIF-----INPSIVEQSLVKLKLIEGCLSFPGIEGKVERP 107
Query: 197 LDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDK 238
+ ++ D +G G +RI QHE DHL+GTL++DK
Sbjct: 108 SIVSISYYDINGYKHLKILKGIHSRIFQHEFDHLNGTLFIDK 149
>pdb|1LME|A Chain A, Crystal Structure Of Peptide Deformylase From Thermotoga
Maritima
pdb|1LME|B Chain B, Crystal Structure Of Peptide Deformylase From Thermotoga
Maritima
Length = 176
Score = 72.4 bits (176), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 47/160 (29%), Positives = 80/160 (50%), Gaps = 22/160 (13%)
Query: 82 GDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVLEDTKE 141
GDPVL + A+ V + E ++ I+ M++ M GVGLAAPQ+G+ R V++
Sbjct: 20 GDPVLRKRAKPVTKFD---ENLKKTIERMIETMYHYDGVGLAAPQVGISQRFFVMDVGNG 76
Query: 142 YISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERYLDIEV 201
++ ++NP++ + T + EG LS +ER I+V
Sbjct: 77 PVA-------------------VINPEILEIDPETEVAEEGXLSFPEIFVEIERSKRIKV 117
Query: 202 TGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKMVP 241
+ G+ ++ + G+ AR+ QHE DHL+G L +D++ P
Sbjct: 118 KYQNTRGEYVEEELEGYAARVFQHEFDHLNGVLIIDRISP 157
>pdb|1LQY|A Chain A, Crystal Structure Of Bacillus Stearothermophilus Peptide
Deformylase Complexed With Antibiotic Actinonin
Length = 184
Score = 71.6 bits (174), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 59/183 (32%), Positives = 85/183 (46%), Gaps = 33/183 (18%)
Query: 75 LPEIVQAGDPVLHEPAREVD-PGEIGSERIQNIIDDMVKVMRSA---------PGVGLAA 124
+ +I++ G P L + A V P +RI + D VK+ + PG+GLAA
Sbjct: 4 MKDIIKEGHPTLRKVAEPVPLPPSEEDKRILQSLLDYVKMSQDPELAAKYGLRPGIGLAA 63
Query: 125 PQIGVPLRIIVLEDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFF--EG 182
PQI V R+I + T E + S + NPK+ S + EG
Sbjct: 64 PQINVSKRMIAVHVTDENGTLYS--------------YALFNPKIVSHSVQQCYLTTGEG 109
Query: 183 CLSVN----GYRAVVERYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDK 238
CLSV+ GY V RY I VTG DG+ + + G A + QHE DHL+G ++ D+
Sbjct: 110 CLSVDRDVPGY---VLRYARITVTGTTLDGEEVTLRLKGLPAIVFQHEIDHLNGIMFYDR 166
Query: 239 MVP 241
+ P
Sbjct: 167 INP 169
>pdb|2OKL|A Chain A, Crystal Structure Of Peptide Deformylase 2 With Actinonin
From Bacillus Cereus
pdb|2OKL|B Chain B, Crystal Structure Of Peptide Deformylase 2 With Actinonin
From Bacillus Cereus
Length = 185
Score = 70.1 bits (170), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 58/182 (31%), Positives = 88/182 (48%), Gaps = 35/182 (19%)
Query: 75 LPEIVQAGDPVLHE-------PAREVDPGEIGSERIQNIID----DMVKVMRSAPGVGLA 123
+ ++++ GDP+L PA E D + E I+ +I+ +M + PG+GLA
Sbjct: 5 MKDVIREGDPILRNVAEEVSLPASEEDTTTL-KEMIEFVINSQDPEMAEKYSLRPGIGLA 63
Query: 124 APQIGVPLRIIVLEDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKS-DRTAL-FFE 181
APQIGV ++I + T + S + NPK+ S +RT L E
Sbjct: 64 APQIGVSKKMIAVHVTDADGTLYSH--------------ALFNPKIISHSVERTYLQGGE 109
Query: 182 GCLSVN----GYRAVVERYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVD 237
GCLSV+ GY V RY I V +G+ +K+ G A + QHE DHL+G ++ D
Sbjct: 110 GCLSVDREVPGY---VPRYTRITVKATSINGEEVKLRLKGLPAIVFQHEIDHLNGVMFYD 166
Query: 238 KM 239
+
Sbjct: 167 HI 168
>pdb|1WS0|A Chain A, Structure Analysis Of Peptide Deformylase From Bacillus
Cereus
pdb|1WS1|A Chain A, Structure Analysis Of Peptide Deformylase From Bacillus
Cereus
Length = 156
Score = 66.6 bits (161), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 52/164 (31%), Positives = 84/164 (51%), Gaps = 23/164 (14%)
Query: 77 EIVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVL 136
EI++ + VL P V + +++ ++ DM + M A GVGLAAPQ+GV L++ V+
Sbjct: 5 EIIKHPNEVLETPCERVINFD---KKLVKLLKDMHETMLIADGVGLAAPQVGVSLQVAVV 61
Query: 137 EDTKEYISYQSKEEIKAFDRRPFDLLMILNPK-LKKKSDRTALFFEGCLSVNGYRAVVER 195
+ + + ++NP L+K+ ++ EGCLS G VER
Sbjct: 62 DVDDDTGKIE-----------------LINPSILEKRGEQVGP--EGCLSFPGLYGEVER 102
Query: 196 YLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKM 239
I+V +R G+ ++A G+ AR +QHE DHL G L+ K+
Sbjct: 103 ADYIKVRAQNRRGKVFLLEAEGFLARAIQHEIDHLHGVLFTSKV 146
>pdb|1JYM|A Chain A, Crystals Of Peptide Deformylase From Plasmodium Falciparum
With Ten Subunits Per Asymmetric Unit Reveal Critical
Characteristics Of The Active Site For Drug Design
pdb|1JYM|B Chain B, Crystals Of Peptide Deformylase From Plasmodium Falciparum
With Ten Subunits Per Asymmetric Unit Reveal Critical
Characteristics Of The Active Site For Drug Design
pdb|1JYM|C Chain C, Crystals Of Peptide Deformylase From Plasmodium Falciparum
With Ten Subunits Per Asymmetric Unit Reveal Critical
Characteristics Of The Active Site For Drug Design
pdb|1JYM|D Chain D, Crystals Of Peptide Deformylase From Plasmodium Falciparum
With Ten Subunits Per Asymmetric Unit Reveal Critical
Characteristics Of The Active Site For Drug Design
pdb|1JYM|E Chain E, Crystals Of Peptide Deformylase From Plasmodium Falciparum
With Ten Subunits Per Asymmetric Unit Reveal Critical
Characteristics Of The Active Site For Drug Design
pdb|1JYM|F Chain F, Crystals Of Peptide Deformylase From Plasmodium Falciparum
With Ten Subunits Per Asymmetric Unit Reveal Critical
Characteristics Of The Active Site For Drug Design
pdb|1JYM|G Chain G, Crystals Of Peptide Deformylase From Plasmodium Falciparum
With Ten Subunits Per Asymmetric Unit Reveal Critical
Characteristics Of The Active Site For Drug Design
pdb|1JYM|H Chain H, Crystals Of Peptide Deformylase From Plasmodium Falciparum
With Ten Subunits Per Asymmetric Unit Reveal Critical
Characteristics Of The Active Site For Drug Design
pdb|1JYM|I Chain I, Crystals Of Peptide Deformylase From Plasmodium Falciparum
With Ten Subunits Per Asymmetric Unit Reveal Critical
Characteristics Of The Active Site For Drug Design
pdb|1JYM|J Chain J, Crystals Of Peptide Deformylase From Plasmodium Falciparum
With Ten Subunits Per Asymmetric Unit Reveal Critical
Characteristics Of The Active Site For Drug Design
Length = 183
Score = 66.6 bits (161), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 53/169 (31%), Positives = 81/169 (47%), Gaps = 32/169 (18%)
Query: 77 EIVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMR-------SAPGVGLAAPQIGV 129
+IV+ DP+L + + N D++ +V+R + G+GL+APQ+ +
Sbjct: 4 KIVKYPDPILRRRSE-----------VTNFDDNLKRVVRKXFDIXYESKGIGLSAPQVNI 52
Query: 130 PLRIIVLEDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGY 189
RIIV E + KEE + R F +NP + ++S EGCLS G
Sbjct: 53 SKRIIVWNALYE----KRKEE----NERIF-----INPSIVEQSLVKLKLIEGCLSF-GI 98
Query: 190 RAVVERYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDK 238
VER + ++ D +G G +RI QHE DHL+GTL++DK
Sbjct: 99 EGKVERPSIVSISYYDINGYKHLKILKGIHSRIFQHEFDHLNGTLFIDK 147
>pdb|2OS3|A Chain A, Structures Of Actinonin Bound Peptide Deformylases From E.
Faecalis And S. Pyogenes
Length = 205
Score = 65.9 bits (159), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 60/203 (29%), Positives = 93/203 (45%), Gaps = 45/203 (22%)
Query: 75 LPEIVQAGDPVLHEPAREV-----DPGEIGSERIQNIIDD-----MVKVMRSAPGVGLAA 124
+ +I++ G+P L A+EV D + E++ + M + + GVGLAA
Sbjct: 15 MDDIIREGNPTLRAVAKEVSLPLCDEDILLGEKMMQFLKHSQDPVMAEKLGLRAGVGLAA 74
Query: 125 PQIGVPLRIIVL----------EDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSD 174
PQI V RII + KE S+Q ++ NPK+ S
Sbjct: 75 PQIDVSKRIIAVLVPNLPDKEGNPPKEAYSWQE---------------VLYNPKIVSHSV 119
Query: 175 RTALFF--EGCLSVN----GYRAVVERYLDIEVTGLDRDGQPIKVDATGWQARILQHECD 228
+ A EGCLSV+ GY V R+ + V D++GQ ++ G+ A ++QHE D
Sbjct: 120 QDAALSDGEGCLSVDRVVEGY---VVRHARVTVDYYDKEGQQHRIKLKGYNAIVVQHEID 176
Query: 229 HLDGTLYVDKMVPKT-FRIVENL 250
H++G L+ D++ K F E L
Sbjct: 177 HINGVLFYDRINAKNPFETKEEL 199
>pdb|3STR|P Chain P, Strep Peptide Deformylase With A Time Dependent
Thiazolidine Hydroxamic Acid
pdb|3SW8|P Chain P, Strep Peptide Deformylase With A Time Dependent
Dichlorobenzamide- Reverse Hydroxamic Acid
pdb|4EOX|P Chain P, X-Ray Structure Of Polypeptide Deformylase Bound To A
Acylprolinamide Inhibitor
Length = 203
Score = 65.5 bits (158), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 58/201 (28%), Positives = 97/201 (48%), Gaps = 33/201 (16%)
Query: 58 ISKAGWLLGLGQNKKAKLPEIVQAGDPVLHEPAREV-----DPGEIGSERIQNIIDD--- 109
I+KA L+ + +I++ G+P L A EV D I E++ +
Sbjct: 7 ITKAAHLIDMN--------DIIREGNPTLRTVAEEVTFPLSDQEIILGEKMMQFLKHSQD 58
Query: 110 --MVKVMRSAPGVGLAAPQIGVPLRIIVLEDTKEYISYQSKEEIKAFDRRPFDLLMILNP 167
M + M GVGLAAPQ+ + RII + I + + +A+D ++ NP
Sbjct: 59 PVMAEKMGLRGGVGLAAPQLDISKRIIAV--LVPNIVEEGETPQEAYDLEA----IMYNP 112
Query: 168 KLKKKSDRTALFFEG--CLSVN----GYRAVVERYLDIEVTGLDRDGQPIKVDATGWQAR 221
K+ S + A EG CLSV+ GY V R+ + V D+DG+ ++ G+ +
Sbjct: 113 KIVSHSVQDAALGEGEGCLSVDRNVPGY---VVRHARVTVDYFDKDGEKHRIKLKGYNSI 169
Query: 222 ILQHECDHLDGTLYVDKMVPK 242
++QHE DH++G ++ D++ K
Sbjct: 170 VVQHEIDHINGIMFYDRINEK 190
>pdb|2AI7|A Chain A, S.Pneumoniae Polypeptide Deformylase Complexed With Sb-
485345
pdb|2AIA|A Chain A, S.Pneumoniae Pdf Complexed With Sb-543668
Length = 203
Score = 65.1 bits (157), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 59/201 (29%), Positives = 97/201 (48%), Gaps = 33/201 (16%)
Query: 58 ISKAGWLLGLGQNKKAKLPEIVQAGDPVLHEPAREV-----DPGEIGSERIQNIIDD--- 109
ISKA L+ + +I++ G+P L A EV D I E++ +
Sbjct: 7 ISKAAHLI--------DMCDIIREGNPSLRTVAEEVTFPLSDQEIILGEKMMQFLKHSQD 58
Query: 110 --MVKVMRSAPGVGLAAPQIGVPLRIIVLEDTKEYISYQSKEEIKAFDRRPFDLLMILNP 167
M + M GVGLAAPQ+ + RII + I + + +A+D ++ NP
Sbjct: 59 PVMAEKMGLRGGVGLAAPQLDISKRIIAV--LVPNIVEEGETPQEAYDLEA----IMYNP 112
Query: 168 KLKKKSDRTALFFEG--CLSVN----GYRAVVERYLDIEVTGLDRDGQPIKVDATGWQAR 221
K+ S + A EG CLSV+ GY V R+ + V D+DG+ ++ G+ +
Sbjct: 113 KIVSHSVQDAALGEGEGCLSVDRNVPGY---VVRHARVTVDYFDKDGEKHRIKLKGYNSI 169
Query: 222 ILQHECDHLDGTLYVDKMVPK 242
++QHE DH++G ++ D++ K
Sbjct: 170 VVQHEIDHINGIMFYDRINEK 190
>pdb|2AIE|P Chain P, S.Pneumoniae Polypeptide Deformylase Complexed With Sb-
505684
Length = 203
Score = 63.9 bits (154), Expect = 8e-11, Method: Compositional matrix adjust.
Identities = 54/182 (29%), Positives = 90/182 (49%), Gaps = 25/182 (13%)
Query: 77 EIVQAGDPVLHEPAREV-----DPGEIGSERIQNIIDD-----MVKVMRSAPGVGLAAPQ 126
+I++ G+P L A EV D I E++ + M + M GVGLAAPQ
Sbjct: 18 DIIREGNPSLRTVAEEVTFPLSDQEIILGEKMMQFLKHSQDPVMAEKMGLRGGVGLAAPQ 77
Query: 127 IGVPLRIIVLEDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFFEG--CL 184
+ + RII + I + + +A+D ++ NPK+ S + A EG CL
Sbjct: 78 LDISKRIIAV--LVPNIVEEGETPQEAYDLEA----IMYNPKIVSHSVQDAALGEGEGCL 131
Query: 185 SVN----GYRAVVERYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKMV 240
SV+ GY V R+ + V D+DG+ ++ G+ + ++QHE DH++G ++ D++
Sbjct: 132 SVDRNVPGY---VVRHARVTVDYFDKDGEKHRIKLKGYNSIVVQHEIDHINGIMFYDRIN 188
Query: 241 PK 242
K
Sbjct: 189 EK 190
>pdb|1LQW|A Chain A, Crystal Structure Of S.Aureus Peptide Deformylase
pdb|1LQW|B Chain B, Crystal Structure Of S.Aureus Peptide Deformylase
pdb|2AI9|A Chain A, S.Aureus Polypeptide Deformylase
pdb|2AI9|B Chain B, S.Aureus Polypeptide Deformylase
Length = 183
Score = 62.0 bits (149), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 50/178 (28%), Positives = 85/178 (47%), Gaps = 26/178 (14%)
Query: 75 LPEIVQAGDPVLHEPAREVDPGEIGSER----------IQNIIDDMVKVMRSAPGVGLAA 124
+ +I++ G P L + A E++ E+ + + +++ K GVGLAA
Sbjct: 4 MKDIIRDGHPTLRQKAAELELPLTKEEKETLIAMREFLVNSQDEEIAKRYGLRSGVGLAA 63
Query: 125 PQIGVPLRIIVLEDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALF--FEG 182
PQI + R+I + K++D M++NPK+ S + A EG
Sbjct: 64 PQINISKRMIA-------VLIPDDGSGKSYD------YMLVNPKIVSHSVQEAYLPTGEG 110
Query: 183 CLSVNGYRA-VVERYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKM 239
CLSV+ A +V R+ I + D +G I++ G+ A + QHE DHL+G ++ D +
Sbjct: 111 CLSVDDNVAGLVHRHNRITIKAKDIEGNDIQLRLKGYPAIVFQHEIDHLNGVMFYDHI 168
>pdb|3SVJ|P Chain P, Strep Peptide Deformylase With A Time Dependent
Thiazolidine Amide
Length = 203
Score = 61.2 bits (147), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 57/201 (28%), Positives = 96/201 (47%), Gaps = 33/201 (16%)
Query: 58 ISKAGWLLGLGQNKKAKLPEIVQAGDPVLHEPAREV-----DPGEIGSERIQNIIDD--- 109
I+KA L+ + +I++ G+P L A EV D I E++ +
Sbjct: 7 ITKAAHLIDMN--------DIIREGNPTLRTVAEEVTFPLSDQEIILGEKMMQFLKHSQD 58
Query: 110 --MVKVMRSAPGVGLAAPQIGVPLRIIVLEDTKEYISYQSKEEIKAFDRRPFDLLMILNP 167
M + M GVGLAAPQ+ + RII + I + + +A+D ++ NP
Sbjct: 59 PVMAEKMGLRGGVGLAAPQLDISKRIIAV--LVPNIVEEGETPQEAYDLEA----IMYNP 112
Query: 168 KLKKKSDRTALFFEG--CLSVN----GYRAVVERYLDIEVTGLDRDGQPIKVDATGWQAR 221
K+ S + A EG LSV+ GY V R+ + V D+DG+ ++ G+ +
Sbjct: 113 KIVSHSVQDAALGEGEGXLSVDRNVPGY---VVRHARVTVDYFDKDGEKHRIKLKGYNSI 169
Query: 222 ILQHECDHLDGTLYVDKMVPK 242
++QHE DH++G ++ D++ K
Sbjct: 170 VVQHEIDHINGIMFYDRINEK 190
>pdb|1LM6|A Chain A, Crystal Structure Of Peptide Deformylase From
Streptococcus Pneumoniae
Length = 215
Score = 60.8 bits (146), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 57/201 (28%), Positives = 96/201 (47%), Gaps = 33/201 (16%)
Query: 58 ISKAGWLLGLGQNKKAKLPEIVQAGDPVLHEPAREV-----DPGEIGSERIQNIIDD--- 109
I+KA L+ + +I++ G+P L A EV D I E++ +
Sbjct: 19 ITKAAHLIDMN--------DIIREGNPTLRTVAEEVTFPLSDQEIILGEKMMQFLKHSQD 70
Query: 110 --MVKVMRSAPGVGLAAPQIGVPLRIIVLEDTKEYISYQSKEEIKAFDRRPFDLLMILNP 167
M + M GVGLAAPQ+ + RII + I + + +A+D ++ NP
Sbjct: 71 PVMAEKMGLRGGVGLAAPQLDISKRIIAV--LVPNIVEEGETPQEAYDLEA----IMYNP 124
Query: 168 KLKKKSDRTALFFEG--CLSVN----GYRAVVERYLDIEVTGLDRDGQPIKVDATGWQAR 221
K+ S + A EG LSV+ GY V R+ + V D+DG+ ++ G+ +
Sbjct: 125 KIVSHSVQDAALGEGEGXLSVDRNVPGY---VVRHARVTVDYFDKDGEKHRIKLKGYNSI 181
Query: 222 ILQHECDHLDGTLYVDKMVPK 242
++QHE DH++G ++ D++ K
Sbjct: 182 VVQHEIDHINGIMFYDRINEK 202
>pdb|2OS1|A Chain A, Structures Of Actinonin Bound Peptide Deformylases From E.
Faecalis And S. Pyogenes
Length = 188
Score = 60.1 bits (144), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 54/183 (29%), Positives = 89/183 (48%), Gaps = 33/183 (18%)
Query: 75 LPEIVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAP------------GVGL 122
+ +I++ G+P L A EV P I E Q + +DM+ ++++ GVGL
Sbjct: 4 MKDIIREGNPTLRAVAEEV-PVPITEEDRQ-LGEDMLTFLKNSQDPVKAEELQLRGGVGL 61
Query: 123 AAPQIGVPLRIIVLEDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFFEG 182
AAPQ+ + RII + ++ E + P ++ NPK+ S + EG
Sbjct: 62 AAPQLDISKRIIAV-----HVPSNDPE-----NETPSLSTVMYNPKILSHSVQDVCLGEG 111
Query: 183 --CLSVN----GYRAVVERYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYV 236
CLSV+ GY V R+ I V+ D G+ KV ++A ++QHE DH++G ++
Sbjct: 112 EGCLSVDRDVPGY---VVRHNKITVSYFDMAGEKHKVRLKNYEAIVVQHEIDHINGIMFY 168
Query: 237 DKM 239
D +
Sbjct: 169 DHI 171
>pdb|3CMD|A Chain A, Crystal Structure Of Peptide Deformylase From
Vre-E.Faecium
pdb|3CMD|B Chain B, Crystal Structure Of Peptide Deformylase From
Vre-E.Faecium
Length = 196
Score = 59.3 bits (142), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 53/188 (28%), Positives = 94/188 (50%), Gaps = 29/188 (15%)
Query: 68 GQNKKAKLPEIVQAGDPVLHEPAREV------DPGEIGSERIQNIID--DMVKV--MRSA 117
G++ + +I++ G+P L E A+EV + +G E ++ + + D +K +
Sbjct: 6 GRHMMITMDDIIREGNPTLREVAKEVSLPLSEEDISLGKEMLEFLKNSQDPIKAEELHLR 65
Query: 118 PGVGLAAPQIGVPLRIIVLEDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTA 177
GVGLAAPQ+ + RII + ++ E P ++ NPK+ S + A
Sbjct: 66 GGVGLAAPQLDISKRIIAV-----HVPSPDPEA-----DGPSLSTVMYNPKILSHSVQDA 115
Query: 178 LFFEG--CLSVN----GYRAVVERYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLD 231
EG CLSV+ GY V R+ I V+ D +G+ K+ +++ ++QHE DH++
Sbjct: 116 CLGEGEGCLSVDREVPGY---VVRHAKITVSYYDMNGEKHKIRLKNYESIVVQHEIDHIN 172
Query: 232 GTLYVDKM 239
G ++ D +
Sbjct: 173 GVMFYDHI 180
>pdb|3G6N|A Chain A, Crystal Structure Of An Efpdf Complex With Met-Ala-Ser
pdb|3G6N|B Chain B, Crystal Structure Of An Efpdf Complex With Met-Ala-Ser
Length = 191
Score = 58.9 bits (141), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 53/188 (28%), Positives = 93/188 (49%), Gaps = 29/188 (15%)
Query: 68 GQNKKAKLPEIVQAGDPVLHEPAREV------DPGEIGSERIQNIID--DMVKV--MRSA 117
G + + +I++ G+P L E A+EV + +G E ++ + + D +K +
Sbjct: 1 GSHMMITMDDIIREGNPTLREVAKEVSLPLSEEDISLGKEMLEFLKNSQDPIKAEELHLR 60
Query: 118 PGVGLAAPQIGVPLRIIVLEDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTA 177
GVGLAAPQ+ + RII + ++ E P ++ NPK+ S + A
Sbjct: 61 GGVGLAAPQLDISKRIIAV-----HVPSPDPEA-----DGPSLSTVMYNPKILSHSVQDA 110
Query: 178 LFFEG--CLSVN----GYRAVVERYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLD 231
EG CLSV+ GY V R+ I V+ D +G+ K+ +++ ++QHE DH++
Sbjct: 111 CLGEGEGCLSVDREVPGY---VVRHAKITVSYYDMNGEKHKIRLKNYESIVVQHEIDHIN 167
Query: 232 GTLYVDKM 239
G ++ D +
Sbjct: 168 GVMFYDHI 175
>pdb|1LM4|A Chain A, Structure Of Peptide Deformylase From Staphylococcus
Aureus At 1.45 A
pdb|1LM4|B Chain B, Structure Of Peptide Deformylase From Staphylococcus
Aureus At 1.45 A
Length = 194
Score = 57.8 bits (138), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 49/178 (27%), Positives = 84/178 (47%), Gaps = 26/178 (14%)
Query: 75 LPEIVQAGDPVLHEPAREVDPGEIGSER----------IQNIIDDMVKVMRSAPGVGLAA 124
+ +I++ G P L + A E++ E+ + + +++ K GVGLAA
Sbjct: 15 MKDIIRDGHPTLRQKAAELELPLTKEEKETLIAMREFLVNSQDEEIAKRYGLRSGVGLAA 74
Query: 125 PQIGVPLRIIVLEDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALF--FEG 182
PQI + R+I + K++D M++NPK+ S + A EG
Sbjct: 75 PQINISKRMIA-------VLIPDDGSGKSYD------YMLVNPKIVSHSVQEAYLPTGEG 121
Query: 183 CLSVNGYRA-VVERYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKM 239
LSV+ A +V R+ I + D +G I++ G+ A + QHE DHL+G ++ D +
Sbjct: 122 XLSVDDNVAGLVHRHNRITIKAKDIEGNDIQLRLKGYPAIVFQHEIDHLNGVMFYDHI 179
>pdb|1Q1Y|A Chain A, Crystal Structures Of Peptide Deformylase From
Staphylococcus Aureus Complexed With Actinonin
pdb|3U7K|A Chain A, Crystal Structures Of The Staphylococcus Aureus Peptide
Deformylase In Complex With Two Classes Of New
Inhibitors
pdb|3U7L|A Chain A, Crystal Structures Of The Staphylococcus Aureus Peptide
Deformylase In Complex With Two Classes Of New
Inhibitors
pdb|3U7M|A Chain A, Crystal Structures Of The Staphylococcus Aureus Peptide
Deformylase In Complex With Two Classes Of New
Inhibitors
pdb|3U7N|A Chain A, Crystal Structures Of The Staphylococcus Aureus Peptide
Deformylase In Complex With Two Classes Of New
Inhibitors
Length = 191
Score = 57.8 bits (138), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 49/178 (27%), Positives = 84/178 (47%), Gaps = 26/178 (14%)
Query: 75 LPEIVQAGDPVLHEPAREVDPGEIGSER----------IQNIIDDMVKVMRSAPGVGLAA 124
+ +I++ G P L + A E++ E+ + + +++ K GVGLAA
Sbjct: 4 MKDIIRDGHPTLRQKAAELELPLTKEEKETLIAMREFLVNSQDEEIAKRYGLRSGVGLAA 63
Query: 125 PQIGVPLRIIVLEDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALF--FEG 182
PQI + R+I + K++D M++NPK+ S + A EG
Sbjct: 64 PQINISKRMIA-------VLIPDDGSGKSYD------YMLVNPKIVSHSVQEAYLPTGEG 110
Query: 183 CLSVNGYRA-VVERYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKM 239
LSV+ A +V R+ I + D +G I++ G+ A + QHE DHL+G ++ D +
Sbjct: 111 XLSVDDNVAGLVHRHNRITIKAKDIEGNDIQLRLKGYPAIVFQHEIDHLNGVMFYDHI 168
>pdb|1LMH|A Chain A, Crystal Structure Of S. Aureus Peptide Deformylase
Length = 184
Score = 57.4 bits (137), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 49/176 (27%), Positives = 81/176 (46%), Gaps = 26/176 (14%)
Query: 77 EIVQAGDPVLHEPAREVDPGEIGSER----------IQNIIDDMVKVMRSAPGVGLAAPQ 126
+I++ G P L + A E++ E+ + + +++ K GVGLAAPQ
Sbjct: 6 DIIRDGHPTLRQKAAELELPLTKEEKETLIAXREFLVNSQDEEIAKRYGLRSGVGLAAPQ 65
Query: 127 IGVPLRIIVLEDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALF--FEGCL 184
I + R I + K++D ++NPK+ S + A EGCL
Sbjct: 66 INISKRXIA-------VLIPDDGSGKSYD------YXLVNPKIVSHSVQEAYLPTGEGCL 112
Query: 185 SVNGYRA-VVERYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKM 239
SV+ A +V R+ I + D +G I++ G+ A + QHE DHL+G + D +
Sbjct: 113 SVDDNVAGLVHRHNKITIKAKDIEGNDIQLRLKGYPAIVFQHEIDHLNGVXFYDHI 168
>pdb|2OS0|A Chain A, Structures Of Actinonin Bound Peptide Deformylases From E.
Faecalis And S. Pyogenes
Length = 188
Score = 57.4 bits (137), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 53/183 (28%), Positives = 88/183 (48%), Gaps = 33/183 (18%)
Query: 75 LPEIVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAPG------------VGL 122
+ +I++ G+P L A EV P I E Q + +DM+ ++++ VGL
Sbjct: 4 MKDIIREGNPTLRAVAEEV-PVPITEEDRQ-LGEDMLTFLKNSQDPVKAEELQLRGDVGL 61
Query: 123 AAPQIGVPLRIIVLEDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFFEG 182
AAPQ+ + RII + ++ E + P ++ NPK+ S + EG
Sbjct: 62 AAPQLDISKRIIAV-----HVPSNDPE-----NETPSLSTVMYNPKILSHSVQDVCLGEG 111
Query: 183 --CLSVN----GYRAVVERYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYV 236
CLSV+ GY V R+ I V+ D G+ KV ++A ++QHE DH++G ++
Sbjct: 112 EGCLSVDRDVPGY---VVRHNKITVSYFDMAGEKHKVRLKNYEAIVVQHEIDHINGIMFY 168
Query: 237 DKM 239
D +
Sbjct: 169 DHI 171
>pdb|3L87|A Chain A, The Crystal Structure Of Smu.143c From Streptococcus
Mutans Ua159
Length = 238
Score = 51.6 bits (122), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 56/194 (28%), Positives = 91/194 (46%), Gaps = 27/194 (13%)
Query: 75 LPEIVQAGDPVLHEPAREV------DPGEIGSERIQNIIDDMVKV----MRSAPGVGLAA 124
+ +I++ G P L A++V D +G + +Q + + V M GVGLAA
Sbjct: 50 MNDIIREGHPTLRAVAQDVTFPLNEDDIILGEKMLQFLKNSQDPVTAEKMELRGGVGLAA 109
Query: 125 PQIGVPLRII-VLEDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFF--E 181
PQ+ + RII VL E +E A ++ NP++ S + A E
Sbjct: 110 PQLDISKRIIAVLIPNPEDKDGNPPKEAYALKE------VMYNPRIIAHSVQDAALADGE 163
Query: 182 GCLSVN----GYRAVVERYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVD 237
G LSV+ GY V R+ + + D++ K+ G+Q+ ++QHE DH +G ++ D
Sbjct: 164 GXLSVDRVVEGY---VIRHSRVTIEYYDKNSDKKKLKLKGYQSIVVQHEIDHTNGIMFFD 220
Query: 238 KMVPKT-FRIVENL 250
++ K F I E L
Sbjct: 221 RINEKNPFEIKEGL 234
>pdb|1AY4|A Chain A, Aromatic Amino Acid Aminotransferase Without Substrate
pdb|1AY4|B Chain B, Aromatic Amino Acid Aminotransferase Without Substrate
pdb|1AY5|A Chain A, Aromatic Amino Acid Aminotransferase Complex With Maleate
pdb|1AY5|B Chain B, Aromatic Amino Acid Aminotransferase Complex With Maleate
pdb|1AY8|A Chain A, Aromatic Amino Acid Aminotransferase Complex With
3-Phenylpropionate
pdb|1AY8|B Chain B, Aromatic Amino Acid Aminotransferase Complex With
3-Phenylpropionate
pdb|2AY1|A Chain A, Aromatic Amino Acid Aminotransferase With
4-aminohydrocinnamic Acid
pdb|2AY1|B Chain B, Aromatic Amino Acid Aminotransferase With
4-aminohydrocinnamic Acid
pdb|2AY2|A Chain A, Aromatic Amino Acid Aminotransferase With Cyclohexane
Propionic Acid
pdb|2AY2|B Chain B, Aromatic Amino Acid Aminotransferase With Cyclohexane
Propionic Acid
pdb|2AY3|A Chain A, Aromatic Amino Acid Aminotransferase With
3-(3,4-Dimethoxyphenyl) Propionic Acid
pdb|2AY3|B Chain B, Aromatic Amino Acid Aminotransferase With
3-(3,4-Dimethoxyphenyl) Propionic Acid
pdb|2AY4|A Chain A, Aromatic Amino Acid Aminotransferase With
3-(P-Tolyl)propionic Acid
pdb|2AY4|B Chain B, Aromatic Amino Acid Aminotransferase With
3-(P-Tolyl)propionic Acid
pdb|2AY5|A Chain A, Aromatic Amino Acid Aminotransferase With
3-indolepropionic Acid
pdb|2AY5|B Chain B, Aromatic Amino Acid Aminotransferase With
3-indolepropionic Acid
pdb|2AY6|A Chain A, Aromatic Amino Acid Aminotransferase With 3-Indolebutyric
Acid
pdb|2AY6|B Chain B, Aromatic Amino Acid Aminotransferase With 3-Indolebutyric
Acid
pdb|2AY7|A Chain A, Aromatic Amino Acid Aminotransferase With 4-Phenylbutyric
Acid
pdb|2AY7|B Chain B, Aromatic Amino Acid Aminotransferase With 4-Phenylbutyric
Acid
pdb|2AY8|A Chain A, Aromatic Amino Acid Aminotransferase With
4-(2-Thienyl)butyric Acid
pdb|2AY8|B Chain B, Aromatic Amino Acid Aminotransferase With
4-(2-Thienyl)butyric Acid
pdb|2AY9|A Chain A, Aromatic Amino Acid Aminotransferase With 5-Phenylvaleric
Acid
pdb|2AY9|B Chain B, Aromatic Amino Acid Aminotransferase With 5-Phenylvaleric
Acid
Length = 394
Score = 28.1 bits (61), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 31/75 (41%), Gaps = 1/75 (1%)
Query: 156 RRPFDLLMILNPKLKK-KSDRTALFFEGCLSVNGYRAVVERYLDIEVTGLDRDGQPIKVD 214
R+ +L + NP L+ SD T ++ G RY D E G+D +G +
Sbjct: 105 RQALELARMANPDLRVFVSDPTWPNHVSIMNFMGLPVQTYRYFDAETRGVDFEGMKADLA 164
Query: 215 ATGWQARILQHECDH 229
A +L H C H
Sbjct: 165 AAKKGDMVLLHGCCH 179
>pdb|1YZW|A Chain A, The 2.1a Crystal Structure Of The Far-Red Fluorescent
Protein Hcred: Inherent Conformational Flexibility Of
The Chromophore
pdb|1YZW|B Chain B, The 2.1a Crystal Structure Of The Far-Red Fluorescent
Protein Hcred: Inherent Conformational Flexibility Of
The Chromophore
pdb|1YZW|C Chain C, The 2.1a Crystal Structure Of The Far-Red Fluorescent
Protein Hcred: Inherent Conformational Flexibility Of
The Chromophore
pdb|1YZW|D Chain D, The 2.1a Crystal Structure Of The Far-Red Fluorescent
Protein Hcred: Inherent Conformational Flexibility Of
The Chromophore
Length = 225
Score = 27.7 bits (60), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 27/58 (46%), Gaps = 9/58 (15%)
Query: 142 YISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERYLDI 199
Y SY+SK+ ++A F I L+KK D +FE Y A V RY D+
Sbjct: 172 YTSYRSKKAVRALTMPGFHFTDIRLQMLRKKKDE---YFE------LYEASVARYSDL 220
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.321 0.139 0.417
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,076,943
Number of Sequences: 62578
Number of extensions: 336613
Number of successful extensions: 818
Number of sequences better than 100.0: 57
Number of HSP's better than 100.0 without gapping: 53
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 711
Number of HSP's gapped (non-prelim): 57
length of query: 266
length of database: 14,973,337
effective HSP length: 97
effective length of query: 169
effective length of database: 8,903,271
effective search space: 1504652799
effective search space used: 1504652799
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 50 (23.9 bits)