RPS-BLAST 2.2.22 [Sep-27-2009]

Database: pdb70 
           24,244 sequences; 5,693,230 total letters

Searching..................................................done

Query= gi|254780297|ref|YP_003064710.1| peptide deformylase
[Candidatus Liberibacter asiaticus str. psy62]
         (170 letters)



>3oca_A Peptide deformylase; ssgcid, structur genomics, seattle structural
           genomics center for infectious hydrolase; 2.40A
           {Ehrlichia chaffeensis}
          Length = 209

 Score =  190 bits (485), Expect = 9e-50
 Identities = 69/182 (37%), Positives = 100/182 (54%), Gaps = 17/182 (9%)

Query: 1   MVKKPLVIFPDPILRRVSRPIEKINSDIMNLIDNMLEVMYSTDGIGLAAVQIGVLYRLVV 60
           M    +V  PD  L   S  +EK++  I  L+D+M E M++  G+GLAAVQ+GV  R++V
Sbjct: 22  MSVLSIVTVPDKRLSLCSEEVEKVDQSIRKLVDDMFETMHANQGLGLAAVQVGVHKRILV 81

Query: 61  IDLQD-----------------HAHRKNPMVFINPKIITFSDDFSVYQEGCLSIPDYRAD 103
           +++ +                 +     P   INPKI+  S +    +EGCLS+P Y   
Sbjct: 82  MNVPEEFEDSEDIENVEDKIEGYELYGGPYCIINPKIVDISQEKVKLKEGCLSVPGYFDY 141

Query: 104 VKRSAFITVRYMDCNAQHQIIYADGLLATCLQHELDHLNGILFIDHLSRLKRDMITKKMS 163
           + R   I V+Y+D N    II A G LA CLQHE+DHLNG +F+ +LS+ KRD   +K+ 
Sbjct: 142 IVRPQRIAVQYLDYNGNECIIKAQGWLARCLQHEIDHLNGTVFLKYLSKFKRDFAIEKVK 201

Query: 164 KL 165
           K 
Sbjct: 202 KK 203


>1n5n_A Peptide deformylase; metalloenzyme, drug design, deformylation,
           hydrolase; 1.80A {Pseudomonas aeruginosa} SCOP:
           d.167.1.1 PDB: 1s17_A* 1ix1_A* 1lry_A*
          Length = 180

 Score =  188 bits (480), Expect = 4e-49
 Identities = 73/165 (44%), Positives = 105/165 (63%), Gaps = 2/165 (1%)

Query: 1   MVKKPLVIFPDPILRRVSRPIEKINSDIMNLIDNMLEVMYSTDGIGLAAVQIGVLYRLVV 60
           M    ++ FPDP LR +++P+E ++  +  LID+M E MY   GIGLAA Q+ V  R+VV
Sbjct: 13  MAILNILEFPDPRLRTIAKPVEVVDDAVRQLIDDMFETMYEAPGIGLAATQVNVHKRIVV 72

Query: 61  IDLQDHAHRKNPMVFINPKIITFSDDFSVYQEGCLSIPDYRADVKRSAFITVRYMDCNAQ 120
           +DL +   +  P VFINP+    +++   YQEGCLS+P +  +V R   + ++ +D +  
Sbjct: 73  MDLSED--KSEPRVFINPEFEPLTEEMDQYQEGCLSVPGFYENVDRPQKVRIKALDRDGN 130

Query: 121 HQIIYADGLLATCLQHELDHLNGILFIDHLSRLKRDMITKKMSKL 165
                A+GLLA C+QHE DHLNG LF+D+LS LKRD I KK+ K 
Sbjct: 131 PFEEVAEGLLAVCIQHECDHLNGKLFVDYLSTLKRDRIRKKLEKQ 175


>1lme_A PDF, peptide deformylase; thermophIle, metalloenzyme,
           deformylation, structural genomics, PSI, protein
           structure initiative; 2.20A {Thermotoga maritima} SCOP:
           d.167.1.1
          Length = 176

 Score =  177 bits (450), Expect = 1e-45
 Identities = 58/161 (36%), Positives = 96/161 (59%), Gaps = 5/161 (3%)

Query: 5   PLVIFPDPILRRVSRPIEKINSDIMNLIDNMLEVMYSTDGIGLAAVQIGVLYRLVVIDLQ 64
            + +F DP+LR+ ++P+ K + ++   I+ M+E MY  DG+GLAA Q+G+  R  V+D+ 
Sbjct: 15  RIRVFGDPVLRKRAKPVTKFDENLKKTIERMIETMYHYDGVGLAAPQVGISQRFFVMDVG 74

Query: 65  DHAHRKNPMVFINPKIITFSDDFSVYQEGCLSIPDYRADVKRSAFITVRYMDCNAQHQII 124
           +      P+  INP+I+    +  V +EGCLS P+   +++RS  I V+Y +   ++   
Sbjct: 75  NG-----PVAVINPEILEIDPETEVAEEGCLSFPEIFVEIERSKRIKVKYQNTRGEYVEE 129

Query: 125 YADGLLATCLQHELDHLNGILFIDHLSRLKRDMITKKMSKL 165
             +G  A   QHE DHLNG+L ID +S  KR ++ KK+  +
Sbjct: 130 ELEGYAARVFQHEFDHLNGVLIIDRISPAKRLLLRKKLMDI 170


>2w3t_A Peptide deformylase; protein biosynthesis, iron, nickel, hydrolase,
           metal-binding; 1.69A {Escherichia coli} PDB: 2w3u_A
          Length = 188

 Score =  175 bits (445), Expect = 4e-45
 Identities = 69/166 (41%), Positives = 114/166 (68%), Gaps = 3/166 (1%)

Query: 4   KPLVIFPDPILRRVSRPIEKINSDIMNLIDNMLEVMYSTDGIGLAAVQIGVLYRLVVIDL 63
             ++  PD  LR+V++P+E++N++I  ++D+M E MY+ +GIGLAA Q+ +  R++VID+
Sbjct: 3   LQVLHIPDERLRKVAKPVEEVNAEIQRIVDDMFETMYAEEGIGLAATQVDIHQRIIVIDV 62

Query: 64  QDHAHRKNPMVFINPKIITFSDDFSVYQEGCLSIPDYRADVKRSAFITVRYMDCNAQHQI 123
            ++  R   +V INP+++      +  +EGCLSIP+ RA V R+  + +R +D + +   
Sbjct: 63  SEN--RDERLVLINPELLE-KSGETGIEEGCLSIPEQRALVPRAEKVKIRALDRDGKPFE 119

Query: 124 IYADGLLATCLQHELDHLNGILFIDHLSRLKRDMITKKMSKLVQLR 169
           + ADGLLA C+QHE+DHL G LF+D+LS LK+  I +K+ KL +L+
Sbjct: 120 LEADGLLAICIQHEMDHLVGKLFMDYLSPLKQQRIRQKVEKLDRLK 165


>3e3u_A Peptide deformylase; metallo-enzyme, hydrolase, iron,
           metal-binding, protein biosynthesis; HET: NVC; 1.56A
           {Mycobacterium tuberculosis}
          Length = 197

 Score =  173 bits (440), Expect = 2e-44
 Identities = 50/176 (28%), Positives = 72/176 (40%), Gaps = 12/176 (6%)

Query: 1   MVKKPLVIFPDPILRRVSRPIE-----KINSDIMNLIDNMLEVMYSTDGIGLAAVQIGVL 55
           M   P+ I  DP+L   + P+       + +D+  LI  M + M + +G+GLAA QIG  
Sbjct: 1   MAVVPIRIVGDPVLHTATTPVTVAADGSLPADLAQLIATMYDTMDAANGVGLAANQIGCS 60

Query: 56  YRLVVIDLQD-------HAHRKNPMVFINPKIITFSDDFSVYQEGCLSIPDYRADVKRSA 108
            RL V D                  V    +I     D     EGCLS+P       R+ 
Sbjct: 61  LRLFVYDCAADRAMTARRRGVVINPVLETSEIPETMPDPDTDDEGCLSVPGESFPTGRAK 120

Query: 109 FITVRYMDCNAQHQIIYADGLLATCLQHELDHLNGILFIDHLSRLKRDMITKKMSK 164
           +  V  +D +     I   GL A  LQHE  HL+G L++D L         + +  
Sbjct: 121 WARVTGLDADGSPVSIEGTGLFARMLQHETGHLDGFLYLDRLIGRYARNAKRAVKS 176


>3dld_A Peptide deformylase; bacterial blight, XOO1075, xanthomonas oryzae
           PV. oryzae KACC10331, hydrolase; 2.60A {Xanthomonas
           oryzae PV}
          Length = 171

 Score =  166 bits (421), Expect = 3e-42
 Identities = 48/170 (28%), Positives = 73/170 (42%), Gaps = 7/170 (4%)

Query: 1   MVKKPLVIFPDPILRRVSRPIEKINSD-IMNLIDNMLEVMYSTDGIGLAAVQIGVLYRLV 59
           M++  ++   D  L RV+  +  + S  +  L+ +M E M +  G+GLAA QI V  +L+
Sbjct: 1   MIR-DIIRMGDKRLLRVAPQVTNLGSAELHALVSDMFETMGAAHGVGLAAPQIAVDLQLM 59

Query: 60  VIDLQDHAHRKN-----PMVFINPKIITFSDDFSVYQEGCLSIPDYRADVKRSAFITVRY 114
           V   +                 N +I   SD+     EGCLSIP  RA + R  +I  R 
Sbjct: 60  VFGFEASERYPEAPAVPLTALANAQIEPLSDEMENGWEGCLSIPGLRAVIPRYRYIRYRG 119

Query: 115 MDCNAQHQIIYADGLLATCLQHELDHLNGILFIDHLSRLKRDMITKKMSK 164
              +       A+G  A  +QHE DHL G L+   +           +S 
Sbjct: 120 FAPDGSPIEREAEGFHARVVQHEYDHLVGRLYPSRIENFDTFGFDDVLSY 169


>1v3y_A Peptide deformylase; protein synthesis, riken structural
           genomics/proteomics initiative, RSGI, structural
           genomics, hydrolase; 1.81A {Thermus thermophilus} SCOP:
           d.167.1.1
          Length = 192

 Score =  152 bits (386), Expect = 3e-38
 Identities = 58/175 (33%), Positives = 92/175 (52%), Gaps = 13/175 (7%)

Query: 1   MVKKPLVIFPDPILRRVSRPIEKINSDIMNLIDNMLEVMYSTDGIGLAAVQIGVLYRLVV 60
           MV  P+ ++ DP+LRR +RP+E  +  I  L ++MLE M+   G+GLAA QIG+  RL V
Sbjct: 1   MVY-PIRLYGDPVLRRKARPVEDFS-GIKRLAEDMLETMFEAKGVGLAAPQIGLSQRLFV 58

Query: 61  I----------DLQDHAHRKNPMVFINPKIITFSDDFSVYQEGCLSIPD-YRADVKRSAF 109
                      + +        +  +   +IT+ +      EGCLS+P  Y  +V R+  
Sbjct: 59  AVEYADEPEGEEERPLRELVRRVYVVANPVITYREGLVEGTEGCLSLPGLYSEEVPRAER 118

Query: 110 ITVRYMDCNAQHQIIYADGLLATCLQHELDHLNGILFIDHLSRLKRDMITKKMSK 164
           I V Y D   + +++  +G +A   QHE+DHL+GILF + L + KR+   +    
Sbjct: 119 IRVEYQDEEGRGRVLELEGYMARVFQHEIDHLDGILFFERLPKPKREAFLEANRA 173


>1zxz_A PDF, peptide deformylase, mitochondrial; PDF1A, eukaryote, higher
           plant, zinc ION, hydrolase; 2.80A {Arabidopsis thaliana}
           PDB: 1zy0_A 1zy1_A
          Length = 197

 Score =  142 bits (358), Expect = 4e-35
 Identities = 54/184 (29%), Positives = 87/184 (47%), Gaps = 17/184 (9%)

Query: 1   MVKKPLVIFPDPILRRVSRPIEKI---NSDIMNLIDNMLEVMYSTDGIGLAAVQIGVLYR 57
           M    +V   DP+L   +R ++     +  I  +ID+M++VM    G+GLAA QIGV  R
Sbjct: 1   MDLPEIVASGDPVLHEKAREVDPGEIGSERIQKIIDDMIKVMRLAPGVGLAAPQIGVPLR 60

Query: 58  LVVIDLQDHAHRKNP--------------MVFINPKIITFSDDFSVYQEGCLSIPDYRAD 103
           ++V++         P              MV +NP +   S+  +++ EGCLS+  +RA 
Sbjct: 61  IIVLEDTKEYISYAPKEEILAQERRHFDLMVMVNPVLKERSNKKALFFEGCLSVDGFRAA 120

Query: 104 VKRSAFITVRYMDCNAQHQIIYADGLLATCLQHELDHLNGILFIDHLSRLKRDMITKKMS 163
           V+R   + V   D   +   + A G  A  LQHE DHL+G L++D +       +     
Sbjct: 121 VERYLEVVVTGYDRQGKRIEVNASGWQARILQHECDHLDGNLYVDKMVPRTFRTVDNLDL 180

Query: 164 KLVQ 167
            L +
Sbjct: 181 PLAE 184


>1y6h_A Peptide deformylase; open and close conformation, PDF, hydrolase;
           2.20A {Leptospira interrogans} SCOP: d.167.1.1 PDB:
           1sv2_A* 1vey_A* 1vev_A 1vez_A 1szz_A*
          Length = 177

 Score =  141 bits (356), Expect = 9e-35
 Identities = 57/175 (32%), Positives = 87/175 (49%), Gaps = 8/175 (4%)

Query: 4   KPLVIFPDPILRRVSRPI---EKINSDIMNLIDNMLEVMYSTDGIGLAAVQIGVLYRLVV 60
           + ++   DPILR++S P+   E    +   LI +M + M   +G+GLAA QIG+L ++VV
Sbjct: 3   RKILRMGDPILRKISEPVTEDEIQTKEFKKLIRDMFDTMRHAEGVGLAAPQIGILKQIVV 62

Query: 61  IDLQD-----HAHRKNPMVFINPKIITFSDDFSVYQEGCLSIPDYRADVKRSAFITVRYM 115
           +  +D             + +NP I   + D S + EGCLS+P  R  V+R   I +++M
Sbjct: 63  VGSEDNERYPGTPDVPERIILNPVITPLTKDTSGFWEGCLSVPGMRGYVERPNQIRMQWM 122

Query: 116 DCNAQHQIIYADGLLATCLQHELDHLNGILFIDHLSRLKRDMITKKMSKLVQLRD 170
           D          DG  A   QHE DHL GIL++D L   K     + +     + D
Sbjct: 123 DEKGNQFDETIDGYKAIVYQHECDHLQGILYVDRLKDTKLFGFNETLDSSHNVLD 177


>3cpm_A Peptide deformylase, chloroplast; alpha beta, hydrolase, iron,
           metal-binding, plastid, protein biosynthesis, transit
           peptide; 2.40A {Arabidopsis thaliana}
          Length = 193

 Score =  140 bits (354), Expect = 1e-34
 Identities = 59/167 (35%), Positives = 90/167 (53%)

Query: 1   MVKKPLVIFPDPILRRVSRPIEKINSDIMNLIDNMLEVMYSTDGIGLAAVQIGVLYRLVV 60
                +V +PDPILR  ++ I+  + ++ NL+D M +VMY TDGIGL+A Q+G+  +L+V
Sbjct: 14  ETPLKIVEYPDPILRAKNKRIDIFDENLKNLVDAMFDVMYKTDGIGLSAPQVGLNVQLMV 73

Query: 61  IDLQDHAHRKNPMVFINPKIITFSDDFSVYQEGCLSIPDYRADVKRSAFITVRYMDCNAQ 120
            +          +V +NPKI  +SD    + EGCLS P   A+V R   + +   D   +
Sbjct: 74  FNPAGEPGEGKEIVLVNPKIKKYSDKLVPFDEGCLSFPGIYAEVVRPQSVKIDARDITGE 133

Query: 121 HQIIYADGLLATCLQHELDHLNGILFIDHLSRLKRDMITKKMSKLVQ 167
              I    L A   QHE DHL G+LF D ++    D I +++  L +
Sbjct: 134 RFSISLSRLPARIFQHEYDHLEGVLFFDRMTDQVLDSIREELEALEK 180


>1rl4_A Formylmethionine deformylase; crystal engineering, drug design,
           malaria, PDF, peptide deformylase, hydrolase; HET: BRR
           BL5; 2.18A {Plasmodium falciparum 3D7} SCOP: d.167.1.1
           PDB: 1rqc_A 1jym_A
          Length = 188

 Score =  136 bits (343), Expect = 2e-33
 Identities = 47/164 (28%), Positives = 86/164 (52%), Gaps = 1/164 (0%)

Query: 5   PLVIFPDPILRRVSRPIEKINSDIMNLIDNMLEVMYSTDGIGLAAVQIGVLYRLVVIDLQ 64
            +V +PDPILRR S  +   + ++  ++  M ++MY + GIGL+A Q+ +  R++V +  
Sbjct: 10  KIVKYPDPILRRRSEEVTNFDDNLKRVVRKMFDIMYESKGIGLSAPQVNISKRIIVWNAL 69

Query: 65  DHAHRKNPMVFINPKIITFSDDFSV-YQEGCLSIPDYRADVKRSAFITVRYMDCNAQHQI 123
               ++          I       +   EGCLS P     V+R + +++ Y D N    +
Sbjct: 70  YEKRKEENERIFINPSIVEQSLVKLKLIEGCLSFPGIEGKVERPSIVSISYYDINGYKHL 129

Query: 124 IYADGLLATCLQHELDHLNGILFIDHLSRLKRDMITKKMSKLVQ 167
               G+ +   QHE DHLNG LFID ++++ +  +  K+++L++
Sbjct: 130 KILKGIHSRIFQHEFDHLNGTLFIDKMTQVDKKKVRPKLNELIR 173


>2ew5_A Peptide deformylase; inhibitor, hydrolase; HET: Y12; 2.20A
           {Helicobacter pylori} PDB: 2ew6_A* 2ew7_A
          Length = 181

 Score =  134 bits (337), Expect = 1e-32
 Identities = 59/164 (35%), Positives = 104/164 (63%), Gaps = 4/164 (2%)

Query: 5   PLVIFPDPILRRVSRPIEKINSDIMNLIDNMLEVMYSTDGIGLAAVQIGVLYRLVVIDL- 63
            ++ +P  ILR +S+ +   ++ +   +D+M E M +++GIGLAA+Q+G+  R+++I+L 
Sbjct: 4   EIIHYPSKILRTISKEVVSFDAKLHQQLDDMYETMIASEGIGLAAIQVGLPLRMLIINLP 63

Query: 64  --QDHAHRKNPMVFINPKIITFSDDFSVYQEGCLSIPDYRADVKRSAFITVRYMDCNAQH 121
                 H+++ +  INPK I       +Y+EGCLS+P +  +V+R   + + Y +  A+ 
Sbjct: 64  QEDGVQHKEDCLEIINPKFIETGGSM-MYKEGCLSVPGFYEEVERFEKVKIEYQNRFAEV 122

Query: 122 QIIYADGLLATCLQHELDHLNGILFIDHLSRLKRDMITKKMSKL 165
           +++ A  LLA  +QHE+DHLNG+LF+D LS LKR    K++ +L
Sbjct: 123 KVLEASELLAVAIQHEIDHLNGVLFVDKLSILKRKKFEKELKEL 166


>1lm4_A Peptide deformylase PDF1; metalloenzyme, hydrolase; 1.45A
           {Staphylococcus aureus} SCOP: d.167.1.1 PDB: 1lqw_A
           2ai9_A 1lmh_A 1q1y_A*
          Length = 194

 Score =  133 bits (336), Expect = 2e-32
 Identities = 46/172 (26%), Positives = 80/172 (46%), Gaps = 17/172 (9%)

Query: 1   MVKKPLVIFPDPILRRVSRPIEK-INSDIMNLIDNMLEVMYST------------DGIGL 47
           +  K ++    P LR+ +  +E  +  +    +  M E + ++             G+GL
Sbjct: 13  LTMKDIIRDGHPTLRQKAAELELPLTKEEKETLIAMREFLVNSQDEEIAKRYGLRSGVGL 72

Query: 48  AAVQIGVLYRLVVIDL-QDHAHRKNPMVFINPKIITFSDDFSVY--QEGCLSIPDYRAD- 103
           AA QI +  R++ + +  D + +    + +NPKI++ S   +     EGCLS+ D  A  
Sbjct: 73  AAPQINISKRMIAVLIPDDGSGKSYDYMLVNPKIVSHSVQEAYLPTGEGCLSVDDNVAGL 132

Query: 104 VKRSAFITVRYMDCNAQHQIIYADGLLATCLQHELDHLNGILFIDHLSRLKR 155
           V R   IT++  D       +   G  A   QHE+DHLNG++F DH+ +   
Sbjct: 133 VHRHNRITIKAKDIEGNDIQLRLKGYPAIVFQHEIDHLNGVMFYDHIDKNHP 184


>3g5k_A Peptide deformylase, mitochondrial; actinonin, hydrolase, iron,
           metal- binding, mitochondrion, protein biosynthesis,
           transit peptide; HET: BB2; 1.70A {Homo sapiens} PDB:
           3g5p_A
          Length = 183

 Score =  129 bits (326), Expect = 2e-31
 Identities = 49/179 (27%), Positives = 84/179 (46%), Gaps = 18/179 (10%)

Query: 1   MVKKPLVIFPDPILRRVSRPIEKI---NSDIMNLIDNMLEVMYSTDGIGLAAVQIGVLYR 57
           M    +    DP+LR V+ P+E+      ++  L   +++VM     +GL+A Q+GV  +
Sbjct: 2   MSFSHVCQVGDPVLRGVAAPVERAQLGGPELQRLTQRLVQVMRRRRCVGLSAPQLGVPRQ 61

Query: 58  LVVIDLQDHAHRKNPM--------------VFINPKIITFSDDFSVYQEGCLSIPDYRAD 103
           ++ ++L +   R+ P               VF+NP +         + EGC S+  + A 
Sbjct: 62  VLALELPEALCRECPPRQRALRQMEPFPLRVFVNPSLRVLDSRLVTFPEGCESVAGFLAC 121

Query: 104 VKRSAFITVRYMDCNAQHQIIYADGLLATCLQHELDHLNGILFIDHLS-RLKRDMITKK 161
           V R   + +  +D N +  +  A G  A  +QHE+DHL G LFID +  R   ++   K
Sbjct: 122 VPRFQAVQISGLDPNGEQVVWQASGWAARIIQHEMDHLQGCLFIDKMDSRTFTNVYWMK 180


>1xeo_A Peptide deformylase; cobalt deformylase, formate, hydrolase; 1.30A
           {Escherichia coli BL21} SCOP: d.167.1.1 PDB: 1bs5_A
           1bs6_A 1bs7_A 1bs8_A 1bsj_A* 1bsk_A* 1bsz_A* 1g27_A*
           1bs4_A* 1icj_A* 1lru_A* 1xem_A 1xen_A 1g2a_A 2ai8_A*
           3k6l_A* 1dff_A 1def_A 2kmn_A* 2def_A ...
          Length = 168

 Score =  129 bits (325), Expect = 3e-31
 Identities = 64/166 (38%), Positives = 110/166 (66%), Gaps = 3/166 (1%)

Query: 4   KPLVIFPDPILRRVSRPIEKINSDIMNLIDNMLEVMYSTDGIGLAAVQIGVLYRLVVIDL 63
             ++  PD  LR+V++P+E++N++I  ++D+M E MY+ +GIGLAA Q+ +  R++VID+
Sbjct: 3   LQVLHIPDERLRKVAKPVEEVNAEIQRIVDDMFETMYAEEGIGLAATQVDIHQRIIVIDV 62

Query: 64  QDHAHRKNPMVFINPKIITFSDDFSVYQEGCLSIPDYRADVKRSAFITVRYMDCNAQHQI 123
            ++   ++  + +    +      +  +EGCLSIP+ RA V R+  + +R +D + +   
Sbjct: 63  SEN---RDERLVLINPELLEKSGETGIEEGCLSIPEQRALVPRAEKVKIRALDRDGKPFE 119

Query: 124 IYADGLLATCLQHELDHLNGILFIDHLSRLKRDMITKKMSKLVQLR 169
           + ADGLLA C+QHE+DHL G LF+D+LS LK+  I +K+ KL +L+
Sbjct: 120 LEADGLLAICIQHEMDHLVGKLFMDYLSPLKQQRIRQKVEKLDRLK 165


>1ws0_A Peptide deformylase 1; alpha + beta topology, hydrolase; 1.70A
           {Bacillus cereus} PDB: 1ws1_A*
          Length = 156

 Score =  119 bits (299), Expect = 3e-28
 Identities = 44/156 (28%), Positives = 77/156 (49%), Gaps = 4/156 (2%)

Query: 1   MVKKPLVIFPDPILRRVSRPIEKINSDIMNLIDNMLEVMYSTDGIGLAAVQIGVLYRLVV 60
           M    ++  P+ +L      +   +  ++ L+ +M E M   DG+GLAA Q+GV  ++ V
Sbjct: 1   MAVLEIIKHPNEVLETPCERVINFDKKLVKLLKDMHETMLIADGVGLAAPQVGVSLQVAV 60

Query: 61  IDLQDHAHRKNPMVFINPKIITFSDDFSVYQEGCLSIPDYRADVKRSAFITVRYMDCNAQ 120
           +            + +    I       V  EGCLS P    +V+R+ +I VR  +   +
Sbjct: 61  V----DVDDDTGKIELINPSILEKRGEQVGPEGCLSFPGLYGEVERADYIKVRAQNRRGK 116

Query: 121 HQIIYADGLLATCLQHELDHLNGILFIDHLSRLKRD 156
             ++ A+G LA  +QHE+DHL+G+LF   ++R   +
Sbjct: 117 VFLLEAEGFLARAIQHEIDHLHGVLFTSKVTRYYEE 152


>2okl_A Peptide deformylase 2; hydrolase; HET: BB2 CIT; 1.70A {Bacillus
           cereus atcc 14579} PDB: 1lqy_A*
          Length = 185

 Score =  116 bits (290), Expect = 3e-27
 Identities = 55/181 (30%), Positives = 81/181 (44%), Gaps = 16/181 (8%)

Query: 1   MVKKPLVIFPDPILRRVSRPIEKINSD-------------IMNLIDNMLEVMYSTDGIGL 47
           +  K ++   DPILR V+  +    S+             I +    M E      GIGL
Sbjct: 3   LTMKDVIREGDPILRNVAEEVSLPASEEDTTTLKEMIEFVINSQDPEMAEKYSLRPGIGL 62

Query: 48  AAVQIGVLYRLVVIDLQDHAHRKNPMVFINPKIITFSDDFSVYQ--EGCLSIP-DYRADV 104
           AA QIGV  +++ + + D           NPKII+ S + +  Q  EGCLS+  +    V
Sbjct: 63  AAPQIGVSKKMIAVHVTDADGTLYSHALFNPKIISHSVERTYLQGGEGCLSVDREVPGYV 122

Query: 105 KRSAFITVRYMDCNAQHQIIYADGLLATCLQHELDHLNGILFIDHLSRLKRDMITKKMSK 164
            R   ITV+    N +   +   GL A   QHE+DHLNG++F DH+++            
Sbjct: 123 PRYTRITVKATSINGEEVKLRLKGLPAIVFQHEIDHLNGVMFYDHINKENPFAAPDDSKP 182

Query: 165 L 165
           L
Sbjct: 183 L 183


>2os0_A Peptide deformylase; PDF, hydrolase; 1.30A {Enterococcus faecalis}
           PDB: 2os1_A* 3g6n_A 3cmd_A
          Length = 188

 Score =  113 bits (284), Expect = 2e-26
 Identities = 47/182 (25%), Positives = 82/182 (45%), Gaps = 20/182 (10%)

Query: 1   MVKKPLVIFPDPILRRVSRPIE-KINSDIMNLIDNMLEVMYSTD------------GIGL 47
           +  K ++   +P LR V+  +   I  +   L ++ML  + ++              +GL
Sbjct: 2   ITMKDIIREGNPTLRAVAEEVPVPITEEDRQLGEDMLTFLKNSQDPVKAEELQLRGDVGL 61

Query: 48  AAVQIGVLYRLVVIDLQDHAHRKN----PMVFINPKIITFS--DDFSVYQEGCLSIP-DY 100
           AA Q+ +  R++ + +  +           V  NPKI++ S  D      EGCLS+  D 
Sbjct: 62  AAPQLDISKRIIAVHVPSNDPENETPSLSTVMYNPKILSHSVQDVCLGEGEGCLSVDRDV 121

Query: 101 RADVKRSAFITVRYMDCNAQHQIIYADGLLATCLQHELDHLNGILFIDHLSRLKRDMITK 160
              V R   ITV Y D   +   +      A  +QHE+DH+NGI+F DH+++     + +
Sbjct: 122 PGYVVRHNKITVSYFDMAGEKHKVRLKNYEAIVVQHEIDHINGIMFYDHINKENPFALKE 181

Query: 161 KM 162
            +
Sbjct: 182 GV 183


>2aia_A Peptide deformylase; hydrolase; HET: SB8; 1.70A {Streptococcus
           pneumoniae} PDB: 2ai7_A* 2aie_P* 1lm6_A 2os3_A*
          Length = 203

 Score =  112 bits (281), Expect = 3e-26
 Identities = 46/189 (24%), Positives = 80/189 (42%), Gaps = 24/189 (12%)

Query: 1   MVKKPLVIFPDPILRRVSRPIEKINSDIMNLID-------------NMLEVMYSTDGIGL 47
           +    ++   +P LR V+  +    SD   ++               M E M    G+GL
Sbjct: 14  IDMCDIIREGNPSLRTVAEEVTFPLSDQEIILGEKMMQFLKHSQDPVMAEKMGLRGGVGL 73

Query: 48  AAVQIGVLYRLVVIDLQD--------HAHRKNPMVFINPKIITFSDDFSVY--QEGCLSI 97
           AA Q+ +  R++ + + +                +  NPKI++ S   +     EGCLS+
Sbjct: 74  AAPQLDISKRIIAVLVPNIVEEGETPQEAYDLEAIMYNPKIVSHSVQDAALGEGEGCLSV 133

Query: 98  P-DYRADVKRSAFITVRYMDCNAQHQIIYADGLLATCLQHELDHLNGILFIDHLSRLKRD 156
             +    V R A +TV Y D + +   I   G  +  +QHE+DH+NGI+F D ++     
Sbjct: 134 DRNVPGYVVRHARVTVDYFDKDGEKHRIKLKGYNSIVVQHEIDHINGIMFYDRINEKDPF 193

Query: 157 MITKKMSKL 165
            +   +  L
Sbjct: 194 AVKDGLLIL 202


>1ug3_A EIF4GI, eukaryotic protein synthesis initiation factor 4G; heat
           repeat, translation; 2.24A {Homo sapiens} SCOP:
           a.118.1.14 a.118.1.14
          Length = 339

 Score = 28.3 bits (63), Expect = 0.90
 Identities = 18/140 (12%), Positives = 41/140 (29%), Gaps = 6/140 (4%)

Query: 32  IDNMLEVMYSTDGIGLAAVQIGVLYRLVVIDLQDHAHRKNPMV-----FINPKIITFSDD 86
           +++M E +     +   ++    +   V   L+  A  +  M       +    ++ +  
Sbjct: 24  LNDMKEAVQCVQELASPSLLFIFVRHGVESTLERSAIAREHMGQLLHQLLCAGHLSTAQY 83

Query: 87  FSVYQEGCLSIPDYRADVKRSAFITVRYMDCNAQHQIIYADGLLATCLQHEL-DHLNGIL 145
           +    E      D   D+          +    Q   +    L     +          L
Sbjct: 84  YQGLYEILELAEDMEIDIPHVWLYLAELVTPILQEGGVPMGELFREITKPLRPLGKAASL 143

Query: 146 FIDHLSRLKRDMITKKMSKL 165
            ++ L  L + M  KK+  L
Sbjct: 144 LLEILGLLCKSMGPKKVGTL 163


>1hsj_A Fusion protein consisting of staphylococcus accessary regulator
           protein R and maltose...; novel fold for DNA binding;
           HET: GLC; 2.30A {Escherichia coli} SCOP: a.4.5.28
           c.94.1.1
          Length = 487

 Score = 26.4 bits (57), Expect = 3.2
 Identities = 9/71 (12%), Positives = 30/71 (42%), Gaps = 12/71 (16%)

Query: 22  EKINSDIMNLIDNMLEVMYSTDGIGLAAVQIGVLYRLVVIDLQDHAHRK-NPMVFINPKI 80
               ++ M+ I+++ +++ +T        Q+   +R    D +   +     +  +N  +
Sbjct: 366 TNAAAEFMSKINDINDLVNATF-------QVKKFFR----DTKKKFNLNYEEIYILNHIL 414

Query: 81  ITFSDDFSVYQ 91
            + S++ S  +
Sbjct: 415 RSESNEISSKE 425


>3m3m_A Glutathione S-transferase; PSI-II, structural genomics, protein
           structure initiative; HET: GTT; 1.75A {Pseudomonas
           fluorescens}
          Length = 210

 Score = 25.4 bits (55), Expect = 6.6
 Identities = 11/59 (18%), Positives = 21/59 (35%), Gaps = 2/59 (3%)

Query: 47  LAAVQIGVLYRLVVIDLQDHAHRKNPMVFINP--KIITFSDDFSVYQEGCLSIPDYRAD 103
           L    +G+ Y    +D+     +    +  NP  KI     +         +I ++ AD
Sbjct: 20  LMLNLLGLPYEWQAVDILGGDTQTEAFLAKNPNGKIPVLELEDGTCLWESNAILNFLAD 78


  Database: pdb70
    Posted date:  Jan 26, 2011 11:21 AM
  Number of letters in database: 5,693,230
  Number of sequences in database:  24,244
  
Lambda     K      H
   0.327    0.143    0.418 

Gapped
Lambda     K      H
   0.267   0.0565    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,490,836
Number of extensions: 66798
Number of successful extensions: 317
Number of sequences better than 10.0: 1
Number of HSP's gapped: 283
Number of HSP's successfully gapped: 27
Length of query: 170
Length of database: 5,693,230
Length adjustment: 86
Effective length of query: 84
Effective length of database: 3,608,246
Effective search space: 303092664
Effective search space used: 303092664
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 53 (24.6 bits)