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= 030852
(170 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1T7D|A Chain A, Crystal Structure Of Escherichia Coli Type I Signal
Peptidase In Complex With A Lipopeptide Inhibitor
pdb|1T7D|B Chain B, Crystal Structure Of Escherichia Coli Type I Signal
Peptidase In Complex With A Lipopeptide Inhibitor
pdb|3S04|A Chain A, Crystal Structure Of Escherichia Coli Type I Signal
Peptidase In Complex With An Arylomycin Lipoglycopeptide
Antibiotic
pdb|3S04|B Chain B, Crystal Structure Of Escherichia Coli Type I Signal
Peptidase In Complex With An Arylomycin Lipoglycopeptide
Antibiotic
Length = 250
Score = 40.0 bits (92), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 37/72 (51%), Gaps = 13/72 (18%)
Query: 43 FNLTTDSFMGSLS-DDYVLVEKFC------------LQKYKFSHGDVIVFCSPSNHKEKH 89
F + + S M +L D++LVEKF ++ GD++VF P + K +
Sbjct: 11 FQIPSGSMMPTLLIGDFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVFKYPEDPKLDY 70
Query: 90 VKRIIGLPGDWI 101
+KR +GLPGD +
Sbjct: 71 IKRAVGLPGDKV 82
Score = 28.9 bits (63), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 21/37 (56%)
Query: 112 VPNGHCWVEGDNPSSSLDSRSFGPIPLGLIKGWVTHI 148
VP G ++ GDN +S DSR +G +P + G T I
Sbjct: 190 VPPGQYFMMGDNRDNSADSRYWGFVPEANLVGRATAI 226
>pdb|1KN9|A Chain A, Crystal Structure Of A Bacterial Signal Peptidase Apo-
Enzyme, Implications For Signal Peptide Binding And The
Ser-Lys Dyad Mechanism.
pdb|1KN9|B Chain B, Crystal Structure Of A Bacterial Signal Peptidase Apo-
Enzyme, Implications For Signal Peptide Binding And The
Ser-Lys Dyad Mechanism.
pdb|1KN9|C Chain C, Crystal Structure Of A Bacterial Signal Peptidase Apo-
Enzyme, Implications For Signal Peptide Binding And The
Ser-Lys Dyad Mechanism.
pdb|1KN9|D Chain D, Crystal Structure Of A Bacterial Signal Peptidase Apo-
Enzyme, Implications For Signal Peptide Binding And The
Ser-Lys Dyad Mechanism.
pdb|3IIQ|A Chain A, Crystallographic Analysis Of Bacterial Signal Peptidase In
Ternary Complex With Arylomycin A2 And A Beta-Sultam
Inhibitor
pdb|3IIQ|B Chain B, Crystallographic Analysis Of Bacterial Signal Peptidase In
Ternary Complex With Arylomycin A2 And A Beta-Sultam
Inhibitor
Length = 249
Score = 40.0 bits (92), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 37/72 (51%), Gaps = 13/72 (18%)
Query: 43 FNLTTDSFMGSLS-DDYVLVEKFC------------LQKYKFSHGDVIVFCSPSNHKEKH 89
F + + S M +L D++LVEKF ++ GD++VF P + K +
Sbjct: 10 FQIPSGSMMPTLLIGDFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVFKYPEDPKLDY 69
Query: 90 VKRIIGLPGDWI 101
+KR +GLPGD +
Sbjct: 70 IKRAVGLPGDKV 81
Score = 28.9 bits (63), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 21/37 (56%)
Query: 112 VPNGHCWVEGDNPSSSLDSRSFGPIPLGLIKGWVTHI 148
VP G ++ GDN +S DSR +G +P + G T I
Sbjct: 189 VPPGQYFMMGDNRDNSADSRYWGFVPEANLVGRATAI 225
>pdb|1B12|A Chain A, Crystal Structure Of Type 1 Signal Peptidase From
Escherichia Coli In Complex With A Beta-Lactam Inhibitor
pdb|1B12|B Chain B, Crystal Structure Of Type 1 Signal Peptidase From
Escherichia Coli In Complex With A Beta-Lactam Inhibitor
pdb|1B12|C Chain C, Crystal Structure Of Type 1 Signal Peptidase From
Escherichia Coli In Complex With A Beta-Lactam Inhibitor
pdb|1B12|D Chain D, Crystal Structure Of Type 1 Signal Peptidase From
Escherichia Coli In Complex With A Beta-Lactam Inhibitor
Length = 248
Score = 40.0 bits (92), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 37/72 (51%), Gaps = 13/72 (18%)
Query: 43 FNLTTDSFMGSLS-DDYVLVEKFC------------LQKYKFSHGDVIVFCSPSNHKEKH 89
F + + S M +L D++LVEKF ++ GD++VF P + K +
Sbjct: 9 FQIPSGSMMPTLLIGDFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVFKYPEDPKLDY 68
Query: 90 VKRIIGLPGDWI 101
+KR +GLPGD +
Sbjct: 69 IKRAVGLPGDKV 80
Score = 28.9 bits (63), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 21/37 (56%)
Query: 112 VPNGHCWVEGDNPSSSLDSRSFGPIPLGLIKGWVTHI 148
VP G ++ GDN +S DSR +G +P + G T I
Sbjct: 188 VPPGQYFMMGDNRDNSADSRYWGFVPEANLVGRATAI 224
>pdb|1X8M|A Chain A, X-Ray Structure Of Pectin Degrading Enzyme 5-Keto 4-
Deoxyuronate Isomerase From Escherichia Coli
pdb|1X8M|B Chain B, X-Ray Structure Of Pectin Degrading Enzyme 5-Keto 4-
Deoxyuronate Isomerase From Escherichia Coli
pdb|1X8M|C Chain C, X-Ray Structure Of Pectin Degrading Enzyme 5-Keto 4-
Deoxyuronate Isomerase From Escherichia Coli
pdb|1X8M|D Chain D, X-Ray Structure Of Pectin Degrading Enzyme 5-Keto 4-
Deoxyuronate Isomerase From Escherichia Coli
pdb|1X8M|E Chain E, X-Ray Structure Of Pectin Degrading Enzyme 5-Keto 4-
Deoxyuronate Isomerase From Escherichia Coli
pdb|1X8M|F Chain F, X-Ray Structure Of Pectin Degrading Enzyme 5-Keto 4-
Deoxyuronate Isomerase From Escherichia Coli
Length = 288
Score = 28.5 bits (62), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 145 VTHILWPPQRVRHIERKNHENILSPS 170
V H++ PQ RHI N + ++SPS
Sbjct: 218 VFHMMGQPQETRHIVMHNEQAVISPS 243
>pdb|1XRU|A Chain A, Crystal Structure Of 5-keto-4-deoxyuronate Isomerase From
Eschericia Coli
pdb|1XRU|B Chain B, Crystal Structure Of 5-keto-4-deoxyuronate Isomerase From
Eschericia Coli
Length = 282
Score = 26.2 bits (56), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 145 VTHILWPPQRVRHIERKNHENILSPS 170
V H PQ RHI N + ++SPS
Sbjct: 219 VFHXXGQPQETRHIVXHNEQAVISPS 244
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 0.138 0.450
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,706,688
Number of Sequences: 62578
Number of extensions: 247888
Number of successful extensions: 417
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 406
Number of HSP's gapped (non-prelim): 13
length of query: 170
length of database: 14,973,337
effective HSP length: 92
effective length of query: 78
effective length of database: 9,216,161
effective search space: 718860558
effective search space used: 718860558
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 48 (23.1 bits)