RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy14392
(164 letters)
>d1v3ya_ d.167.1.1 (A:) Peptide deformylase {Thermus thermophilus
[TaxId: 274]}
Length = 182
Score = 90.2 bits (223), Expect = 6e-24
Identities = 35/136 (25%), Positives = 59/136 (43%), Gaps = 3/136 (2%)
Query: 2 KIIILQMKNVMKRFDLFGLSAPQVGLPLRLFIVAFPDPEESFSEGDIKKFEMQAFPHMVW 61
K + M M GL+APQ+GL RLF+ EG+ ++ + +
Sbjct: 27 KRLAEDMLETMFEAKGVGLAAPQIGLSQRLFVA---VEYADEPEGEEERPLRELVRRVYV 83
Query: 62 INPEMKILDYKDKVTALEGCASLKSLQAKVPRYRKVQLTGLDETGKPDSWTAEGWAARII 121
+ + + +VPR ++++ DE G+ EG+ AR+
Sbjct: 84 VANPVITYREGLVEGTEGCLSLPGLYSEEVPRAERIRVEYQDEEGRGRVLELEGYMARVF 143
Query: 122 QHEMDHLDGLLFTDSM 137
QHE+DHLDG+LF + +
Sbjct: 144 QHEIDHLDGILFFERL 159
>d1y6ha_ d.167.1.1 (A:) Peptide deformylase {Leptospira interrogans
[TaxId: 173]}
Length = 177
Score = 89.0 bits (220), Expect = 1e-23
Identities = 40/145 (27%), Positives = 68/145 (46%), Gaps = 9/145 (6%)
Query: 1 MKIIILQMKNVMKRFDLFGLSAPQVGLPLRLFIVAFPDPEESFSEGDIKKFEMQAFPHMV 60
K +I M + M+ + GL+APQ+G+ ++ +V D E + P +
Sbjct: 30 FKKLIRDMFDTMRHAEGVGLAAPQIGILKQIVVVGSEDNE--------RYPGTPDVPERI 81
Query: 61 WINPEMKILDYKDKVTALEGCASLKSLQAKVPRYRKVQLTGLDETGKPDSWTAEGWAARI 120
+NP + L D EGC S+ ++ V R ++++ +DE G T +G+ A +
Sbjct: 82 ILNPVITPLTK-DTSGFWEGCLSVPGMRGYVERPNQIRMQWMDEKGNQFDETIDGYKAIV 140
Query: 121 IQHEMDHLDGLLFTDSMLPKSLECV 145
QHE DHL G+L+ D + L
Sbjct: 141 YQHECDHLQGILYVDRLKDTKLFGF 165
>d1lm6a_ d.167.1.1 (A:) Peptide deformylase {Streptococcus
pneumoniae [TaxId: 1313]}
Length = 202
Score = 78.4 bits (192), Expect = 3e-19
Identities = 29/131 (22%), Positives = 56/131 (42%), Gaps = 5/131 (3%)
Query: 8 MKNVMKRFDLFGLSAPQVGLPLRLFIVAFPDPEESFSEGDIKKFEMQAFPHMVWINPEMK 67
M M GL+APQ+ + R+ V P+ E E +++ +
Sbjct: 61 MAEKMGLRGGVGLAAPQLDISKRIIAVLVPN----IVEEGETPQEAYDLEAIMYNPKIVS 116
Query: 68 ILDYKDKVTALEGCASLKSLQAKVP-RYRKVQLTGLDETGKPDSWTAEGWAARIIQHEMD 126
+ EGC S+ R+ +V + D+ G+ +G+ + ++QHE+D
Sbjct: 117 HSVQDAALGEGEGCLSVDRNVPGYVVRHARVTVDYFDKDGEKHRIKLKGYNSIVVQHEID 176
Query: 127 HLDGLLFTDSM 137
H++G++F D +
Sbjct: 177 HINGIMFYDRI 187
>d1lmea_ d.167.1.1 (A:) Peptide deformylase {Thermotoga maritima
[TaxId: 2336]}
Length = 154
Score = 74.0 bits (181), Expect = 5e-18
Identities = 41/139 (29%), Positives = 68/139 (48%), Gaps = 19/139 (13%)
Query: 1 MKIIILQMKNVMKRFDLFGLSAPQVGLPLRLFIVAFPDPEESFSEGDIKKFEMQAFPHMV 60
+K I +M M +D GL+APQVG+ R F++ + +
Sbjct: 35 LKKTIERMIETMYHYDGVGLAAPQVGISQRFFVMDVGNGP------------------VA 76
Query: 61 WINPEMKILDYKDKVTALEGCASLKSLQAKVPRYRKVQLTGLDETGKPDSWTAEGWAARI 120
INPE+ +D + A EGC S + ++ R +++++ + G+ EG+AAR+
Sbjct: 77 VINPEILEID-PETEVAEEGCLSFPEIFVEIERSKRIKVKYQNTRGEYVEEELEGYAARV 135
Query: 121 IQHEMDHLDGLLFTDSMLP 139
QHE DHL+G+L D + P
Sbjct: 136 FQHEFDHLNGVLIIDRISP 154
>d1lm4a_ d.167.1.1 (A:) Peptide deformylase {Staphylococcus aureus
[TaxId: 1280]}
Length = 194
Score = 72.2 bits (176), Expect = 6e-17
Identities = 28/132 (21%), Positives = 56/132 (42%), Gaps = 12/132 (9%)
Query: 7 QMKNVMKRFDLFGLSAPQVGLPLRLFIVAFPDPEESFSEGDIKKFEMQAFPHMVWINPEM 66
++ GL+APQ+ + R+ V PD +++ +M+ +
Sbjct: 59 EIAKRYGLRSGVGLAAPQINISKRMIAVLIPDD-----------GSGKSYDYMLVNPKIV 107
Query: 67 KILDYKDKVTALEGCASLKSLQAKVPR-YRKVQLTGLDETGKPDSWTAEGWAARIIQHEM 125
+ + EGC S+ A + + ++ + D G +G+ A + QHE+
Sbjct: 108 SHSVQEAYLPTGEGCLSVDDNVAGLVHRHNRITIKAKDIEGNDIQLRLKGYPAIVFQHEI 167
Query: 126 DHLDGLLFTDSM 137
DHL+G++F D +
Sbjct: 168 DHLNGVMFYDHI 179
>d1xeoa1 d.167.1.1 (A:1-164) Peptide deformylase {Escherichia coli
[TaxId: 562]}
Length = 164
Score = 69.8 bits (170), Expect = 3e-16
Identities = 46/143 (32%), Positives = 68/143 (47%), Gaps = 17/143 (11%)
Query: 1 MKIIILQMKNVMKRFDLFGLSAPQVGLPLRLFIVAFPDPEESFSEGDIKKFEMQAFPHMV 60
++ I+ M M + GL+A QV + R+ ++ + + +V
Sbjct: 27 IQRIVDDMFETMYAEEGIGLAATQVDIHQRIIVIDVSENRD---------------ERLV 71
Query: 61 WINPEMKILDYKDKVTALEGCASLKSLQAKVPRYRKVQLTGLDETGKPDSWTAEGWAARI 120
INPE +L+ + EGC S+ +A VPR KV++ LD GKP A+G A
Sbjct: 72 LINPE--LLEKSGETGIEEGCLSIPEQRALVPRAEKVKIRALDRDGKPFELEADGLLAIC 129
Query: 121 IQHEMDHLDGLLFTDSMLPKSLE 143
IQHEMDHL G LF D + P +
Sbjct: 130 IQHEMDHLVGKLFMDYLSPLKQQ 152
>d1rl4a_ d.167.1.1 (A:) Peptide deformylase {Malaria parasite
(Plasmodium falciparum) [TaxId: 5833]}
Length = 165
Score = 67.2 bits (163), Expect = 3e-15
Identities = 36/137 (26%), Positives = 57/137 (41%), Gaps = 13/137 (9%)
Query: 1 MKIIILQMKNVMKRFDLFGLSAPQVGLPLRLFIVAFPDPEESFSEGDIKKFEMQAFPHMV 60
+K ++ +M ++M GLSAPQV + R+ + + +
Sbjct: 24 LKRVVRKMFDIMYESKGIGLSAPQVNISKRIIVWNALYE-------------KRKEENER 70
Query: 61 WINPEMKILDYKDKVTALEGCASLKSLQAKVPRYRKVQLTGLDETGKPDSWTAEGWAARI 120
+ K+ +EGC S ++ KV R V ++ D G +G +RI
Sbjct: 71 IFINPSIVEQSLVKLKLIEGCLSFPGIEGKVERPSIVSISYYDINGYKHLKILKGIHSRI 130
Query: 121 IQHEMDHLDGLLFTDSM 137
QHE DHL+G LF D M
Sbjct: 131 FQHEFDHLNGTLFIDKM 147
>d1lqya_ d.167.1.1 (A:) Peptide deformylase {Bacillus
stearothermophilus [TaxId: 1422]}
Length = 184
Score = 65.2 bits (158), Expect = 2e-14
Identities = 29/135 (21%), Positives = 52/135 (38%), Gaps = 13/135 (9%)
Query: 8 MKNVMKRFDLFGLSAPQVGLPLRLFIVAFPDPEESFSEGDIKKFEMQAFPHMVWINPEMK 67
+ GL+APQ+ + R+ V D + + ++ +
Sbjct: 49 LAAKYGLRPGIGLAAPQINVSKRMIAVHVTDENGTLYSYALFNPKIVSHSVQQCYLTTG- 107
Query: 68 ILDYKDKVTALEGCASLKSLQAKVP-RYRKVQLTGLDETGKPDSWTAEGWAARIIQHEMD 126
EGC S+ RY ++ +TG G+ + +G A + QHE+D
Sbjct: 108 -----------EGCLSVDRDVPGYVLRYARITVTGTTLDGEEVTLRLKGLPAIVFQHEID 156
Query: 127 HLDGLLFTDSMLPKS 141
HL+G++F D + P
Sbjct: 157 HLNGIMFYDRINPAD 171
>d1ix1a_ d.167.1.1 (A:) Peptide deformylase {Pseudomonas aeruginosa
[TaxId: 287]}
Length = 169
Score = 64.8 bits (157), Expect = 2e-14
Identities = 43/137 (31%), Positives = 61/137 (44%), Gaps = 16/137 (11%)
Query: 1 MKIIILQMKNVMKRFDLFGLSAPQVGLPLRLFIVAFPDPEESFSEGDIKKFEMQAFPHMV 60
++ +I M M GL+A QV + R+ ++ + + V
Sbjct: 27 VRQLIDDMFETMYEAPGIGLAATQVNVHKRIVVMDLSEDKSEP---------------RV 71
Query: 61 WINPEMKILDYKDKVTALEGCASLKSLQAKVPRYRKVQLTGLDETGKPDSWTAEGWAARI 120
+INPE + L D EGC S+ V R +KV++ LD G P AEG A
Sbjct: 72 FINPEFEPLTE-DMDQYQEGCLSVPGFYENVDRPQKVRIKALDRDGNPFEEVAEGLLAVC 130
Query: 121 IQHEMDHLDGLLFTDSM 137
IQHE DHL+G LF D +
Sbjct: 131 IQHECDHLNGKLFVDYL 147
>d2qgma1 c.150.1.3 (A:33-445) Succinoglycan biosynthesis protein
BC3205 {Bacillus cereus [TaxId: 1396]}
Length = 413
Score = 27.3 bits (60), Expect = 1.1
Identities = 9/52 (17%), Positives = 18/52 (34%), Gaps = 11/52 (21%)
Query: 52 EMQAFPHMVWINPEMKILDYKDKVTALEGCASLKSLQAKVPRYRKVQLTGLD 103
+ F +++ E+ + +K A +K+Q GLD
Sbjct: 99 NPREFLKLLYPTDEIIAM-----------IEWMKDYNADPSNKKKIQFIGLD 139
>d3b55a1 c.150.1.3 (A:40-442) Succinoglycan biosynthesis protein
BC3120 {Bacillus cereus [TaxId: 1396]}
Length = 403
Score = 24.6 bits (53), Expect = 8.5
Identities = 9/52 (17%), Positives = 16/52 (30%), Gaps = 11/52 (21%)
Query: 52 EMQAFPHMVWINPEMKILDYKDKVTALEGCASLKSLQAKVPRYRKVQLTGLD 103
V+ EM L+ ++ A KV++ G+D
Sbjct: 93 NPSQHLTPVFKTKEM-----------LDLLDWIRQYNANPKHKSKVRVIGMD 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
0.323 0.139 0.428
Gapped
Lambda K H
0.267 0.0568 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 653,811
Number of extensions: 29543
Number of successful extensions: 91
Number of sequences better than 10.0: 1
Number of HSP's gapped: 87
Number of HSP's successfully gapped: 13
Length of query: 164
Length of database: 2,407,596
Length adjustment: 79
Effective length of query: 85
Effective length of database: 1,322,926
Effective search space: 112448710
Effective search space used: 112448710
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 49 (23.0 bits)