RPS-BLAST 2.2.22 [Sep-27-2009]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= gi|254780297|ref|YP_003064710.1| peptide deformylase
[Candidatus Liberibacter asiaticus str. psy62]
(170 letters)
>d1v3ya_ d.167.1.1 (A:) Peptide deformylase {Thermus thermophilus
[TaxId: 274]}
Length = 182
Score = 144 bits (365), Expect = 3e-36
Identities = 58/175 (33%), Positives = 90/175 (51%), 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 IDLQDHAHR----------KNPMVFINPKIITFSDDFSVYQEGCLSIPD-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
>d1y6ha_ d.167.1.1 (A:) Peptide deformylase {Leptospira interrogans
[TaxId: 173]}
Length = 177
Score = 142 bits (360), Expect = 1e-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
>d1ix1a_ d.167.1.1 (A:) Peptide deformylase {Pseudomonas aeruginosa
[TaxId: 287]}
Length = 169
Score = 138 bits (347), Expect = 4e-34
Identities = 73/165 (44%), Positives = 106/165 (64%), Gaps = 2/165 (1%)
Query: 5 PLVIFPDPILRRVSRPIEKINSDIMNLIDNMLEVMYSTDGIGLAAVQIGVLYRLVVIDLQ 64
++ FPDP LR +++P+E ++ + LID+M E MY GIGLAA Q+ V R+VV+DL
Sbjct: 4 NILEFPDPRLRTIAKPVEVVDDAVRQLIDDMFETMYEAPGIGLAATQVNVHKRIVVMDLS 63
Query: 65 DHAHRKNPMVFINPKIITFSDDFSVYQEGCLSIPDYRADVKRSAFITVRYMDCNAQHQII 124
+ + P VFINP+ ++D YQEGCLS+P + +V R + ++ +D +
Sbjct: 64 ED--KSEPRVFINPEFEPLTEDMDQYQEGCLSVPGFYENVDRPQKVRIKALDRDGNPFEE 121
Query: 125 YADGLLATCLQHELDHLNGILFIDHLSRLKRDMITKKMSKLVQLR 169
A+GLLA C+QHE DHLNG LF+D+LS LKRD I KK+ K + +
Sbjct: 122 VAEGLLAVCIQHECDHLNGKLFVDYLSTLKRDRIRKKLEKQHRQQ 166
>d1xeoa1 d.167.1.1 (A:1-164) Peptide deformylase {Escherichia coli
[TaxId: 562]}
Length = 164
Score = 132 bits (332), Expect = 2e-32
Identities = 64/165 (38%), Positives = 109/165 (66%), Gaps = 3/165 (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 IYADGLLATCLQHELDHLNGILFIDHLSRLKRDMITKKMSKLVQL 168
+ ADGLLA C+QHE+DHL G LF+D+LS LK+ I +K+ KL +L
Sbjct: 120 LEADGLLAICIQHEMDHLVGKLFMDYLSPLKQQRIRQKVEKLDRL 164
>d1lmea_ d.167.1.1 (A:) Peptide deformylase {Thermotoga maritima
[TaxId: 2336]}
Length = 154
Score = 130 bits (329), Expect = 4e-32
Identities = 54/147 (36%), Positives = 88/147 (59%), Gaps = 5/147 (3%)
Query: 5 PLVIFPDPILRRVSRPIEKINSDIMNLIDNMLEVMYSTDGIGLAAVQIGVLYRLVVIDLQ 64
+ +F DP+LR+ ++P+ K + ++ I+ M+E MY DG+GLAA Q+G+ R V+D+
Sbjct: 12 RIRVFGDPVLRKRAKPVTKFDENLKKTIERMIETMYHYDGVGLAAPQVGISQRFFVMDVG 71
Query: 65 DHAHRKNPMVFINPKIITFSDDFSVYQEGCLSIPDYRADVKRSAFITVRYMDCNAQHQII 124
+ P+ INP+I+ + V +EGCLS P+ +++RS I V+Y + ++
Sbjct: 72 NG-----PVAVINPEILEIDPETEVAEEGCLSFPEIFVEIERSKRIKVKYQNTRGEYVEE 126
Query: 125 YADGLLATCLQHELDHLNGILFIDHLS 151
+G A QHE DHLNG+L ID +S
Sbjct: 127 ELEGYAARVFQHEFDHLNGVLIIDRIS 153
>d1rl4a_ d.167.1.1 (A:) Peptide deformylase {Malaria parasite
(Plasmodium falciparum) [TaxId: 5833]}
Length = 165
Score = 123 bits (309), Expect = 9e-30
Identities = 53/163 (32%), Positives = 93/163 (57%), Gaps = 1/163 (0%)
Query: 6 LVIFPDPILRRVSRPIEKINSDIMNLIDNMLEVMYSTDGIGLAAVQIGVLYRLVVIDLQD 65
+V +PDPILRR S + + ++ ++ M ++MY + GIGL+A Q+ + R++V +
Sbjct: 2 IVKYPDPILRRRSEEVTNFDDNLKRVVRKMFDIMYESKGIGLSAPQVNISKRIIVWNALY 61
Query: 66 HAHR-KNPMVFINPKIITFSDDFSVYQEGCLSIPDYRADVKRSAFITVRYMDCNAQHQII 124
+ +N +FINP I+ S EGCLS P V+R + +++ Y D N +
Sbjct: 62 EKRKEENERIFINPSIVEQSLVKLKLIEGCLSFPGIEGKVERPSIVSISYYDINGYKHLK 121
Query: 125 YADGLLATCLQHELDHLNGILFIDHLSRLKRDMITKKMSKLVQ 167
G+ + QHE DHLNG LFID ++++ + + K+++L++
Sbjct: 122 ILKGIHSRIFQHEFDHLNGTLFIDKMTQVDKKKVRPKLNELIR 164
>d1lqya_ d.167.1.1 (A:) Peptide deformylase {Bacillus
stearothermophilus [TaxId: 1422]}
Length = 184
Score = 115 bits (288), Expect = 2e-27
Identities = 50/181 (27%), Positives = 80/181 (44%), Gaps = 16/181 (8%)
Query: 1 MVKKPLVIFPDPILRRVSRPIEKINSD-IMNLIDNMLEVMYSTD------------GIGL 47
+ K ++ P LR+V+ P+ S+ ++ ++L+ + + GIGL
Sbjct: 2 ITMKDIIKEGHPTLRKVAEPVPLPPSEEDKRILQSLLDYVKMSQDPELAAKYGLRPGIGL 61
Query: 48 AAVQIGVLYRLVVIDLQDHAHRKNPMVFINPKIITFSDDFSVY--QEGCLSIP-DYRADV 104
AA QI V R++ + + D NPKI++ S EGCLS+ D V
Sbjct: 62 AAPQINVSKRMIAVHVTDENGTLYSYALFNPKIVSHSVQQCYLTTGEGCLSVDRDVPGYV 121
Query: 105 KRSAFITVRYMDCNAQHQIIYADGLLATCLQHELDHLNGILFIDHLSRLKRDMITKKMSK 164
R A ITV + + + GL A QHE+DHLNGI+F D ++ +
Sbjct: 122 LRYARITVTGTTLDGEEVTLRLKGLPAIVFQHEIDHLNGIMFYDRINPADPFQVPDGAIP 181
Query: 165 L 165
+
Sbjct: 182 I 182
>d1lm6a_ d.167.1.1 (A:) Peptide deformylase {Streptococcus
pneumoniae [TaxId: 1313]}
Length = 202
Score = 110 bits (275), Expect = 7e-26
Identities = 41/186 (22%), Positives = 72/186 (38%), Gaps = 24/186 (12%)
Query: 1 MVKKPLVIFPDPILRRVSRPIEKINSDIMNLIDN-------------MLEVMYSTDGIGL 47
+ ++ +P LR V+ + SD ++ M E M G+GL
Sbjct: 14 IDMNDIIREGNPTLRTVAEEVTFPLSDQEIILGEKMMQFLKHSQDPVMAEKMGLRGGVGL 73
Query: 48 AAVQIGVLYRLVVIDLQDHAHRKNPMVFINPKIITFSDDFSV----------YQEGCLSI 97
AA Q+ + R++ + + + + V 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 MITKKM 162
+ +
Sbjct: 194 AVKDGL 199
>d1lm4a_ d.167.1.1 (A:) Peptide deformylase {Staphylococcus aureus
[TaxId: 1280]}
Length = 194
Score = 109 bits (272), Expect = 2e-25
Identities = 44/172 (25%), Positives = 79/172 (45%), Gaps = 17/172 (9%)
Query: 1 MVKKPLVIFPDPILRRVSRPIE-KINSDIMNLIDNMLEVMYST------------DGIGL 47
+ K ++ P LR+ + +E + + + M E + ++ G+GL
Sbjct: 13 LTMKDIIRDGHPTLRQKAAELELPLTKEEKETLIAMREFLVNSQDEEIAKRYGLRSGVGL 72
Query: 48 AAVQIGVLYRLVVIDL-QDHAHRKNPMVFINPKIITFSDDFSVY--QEGCLSIPDYRADV 104
AA QI + R++ + + D + + + +NPKI++ S + EGCLS+ D A +
Sbjct: 73 AAPQINISKRMIAVLIPDDGSGKSYDYMLVNPKIVSHSVQEAYLPTGEGCLSVDDNVAGL 132
Query: 105 KRSAF-ITVRYMDCNAQHQIIYADGLLATCLQHELDHLNGILFIDHLSRLKR 155
IT++ D + G A QHE+DHLNG++F DH+ +
Sbjct: 133 VHRHNRITIKAKDIEGNDIQLRLKGYPAIVFQHEIDHLNGVMFYDHIDKNHP 184
>d2q4ma1 d.23.1.2 (A:24-212) Hypothetical protein At5g01750 {Thale
cress (Arabidopsis thaliana) [TaxId: 3702]}
Length = 189
Score = 28.0 bits (62), Expect = 0.40
Identities = 19/107 (17%), Positives = 42/107 (39%), Gaps = 10/107 (9%)
Query: 8 IFPDPILRRVSRPIEKINSDIMNLIDNMLEVMYSTDGIGLAAVQIGVLYRLVVIDLQDHA 67
P PI + R + + + D +++ G+ + V++D
Sbjct: 10 CAPYPIDMAIVRKMMSLTDGNFVITDVNGNLLFKVKEPVF-----GLHDKRVLLDGSG-- 62
Query: 68 HRKNPMVFINPKIITFSDDFSVYQEGCLSIPDYRADVKRSAFITVRY 114
P+V + K+++ D + V++ G D VKRS+ + ++
Sbjct: 63 ---TPVVTLREKMVSMHDRWQVFRGGSTDQRDLLYTVKRSSMLQLKT 106
>d2i0ka1 d.58.32.3 (A:274-613) Cholesterol oxidase {Brevibacterium
sterolicum [TaxId: 1702]}
Length = 340
Score = 25.3 bits (55), Expect = 2.9
Identities = 12/42 (28%), Positives = 18/42 (42%)
Query: 8 IFPDPILRRVSRPIEKINSDIMNLIDNMLEVMYSTDGIGLAA 49
IF D + ++ I IN+ + MY +GLAA
Sbjct: 92 IFSDNLPEPITDMIGAINAGNPGIAPLFGPAMYEITKLGLAA 133
Database: scop70_1_75
Posted date: Mar 27, 2010 6:21 PM
Number of letters in database: 2,407,596
Number of sequences in database: 13,730
Lambda K H
0.327 0.143 0.418
Gapped
Lambda K H
0.267 0.0449 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 648,311
Number of extensions: 29462
Number of successful extensions: 113
Number of sequences better than 10.0: 1
Number of HSP's gapped: 97
Number of HSP's successfully gapped: 15
Length of query: 170
Length of database: 2,407,596
Length adjustment: 79
Effective length of query: 91
Effective length of database: 1,322,926
Effective search space: 120386266
Effective search space used: 120386266
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: 50 (23.7 bits)