BLASTP 2.2.1 [Apr-13-2001]
Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
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.
Query= gi|15646057|ref|NP_208239.1| ribonuclease P, protein
component (rnpA) [Helicobacter pylori 26695]
(161 letters)
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
13,198 sequences; 2,899,336 total letters
Searching...........................done
Score E
Sequences producing significant alignments: (bits) Value
pdb|1A6F| Rnase P Protein From Bacillus Subtilis 46 2e-06
pdb|1D6T|A Chain A, Rnase P Protein From Staphylococcus Aureus 45 4e-06
pdb|1DRK| D-Ribose-Binding Protein Mutant With Ile 132 Re... 26 1.9
pdb|1DRJ| D-Ribose-Binding Protein Mutant With Gly 134 Re... 26 1.9
pdb|2DRI| D-Ribose-Binding Protein Complexed With Beta-D-... 26 1.9
pdb|1BA2|A Chain A, D67r Mutant Of D-Ribose-Binding Protein... 26 1.9
pdb|1H6H|A Chain A, Structure Of The Px Domain From P40phox... 26 2.5
pdb|1MYR| Myrosinase From Sinapis Alba 25 4.3
pdb|1DWA|M Chain M, Study On Radiation Damage On A Cryocool... 24 7.3
pdb|1E4M|M Chain M, Myrosinase From Sinapis Alba >gi|130967... 24 7.3
pdb|1DGU|A Chain A, Homology-Based Model Of Calcium-Saturat... 24 9.6
pdb|1AMX| Collagen-Binding Domain From A Staphylococcus A... 24 9.6
>pdb|1A6F| Rnase P Protein From Bacillus Subtilis
Length = 119
Score = 45.8 bits (107), Expect = 2e-06
Identities = 35/135 (25%), Positives = 55/135 (39%), Gaps = 20/135 (14%)
Query: 14 KPYDSLKNKSEFDRVYQKGFKKHNPFFSLFVLDLSQEPPKEKAGFKDPLFCRLKDKKTLY 73
K + LK +F +V++ G N F L+ LD +P ++
Sbjct: 5 KKRNRLKKNEDFQKVFKHGTSVANRQFVLYTLD---QPENDELR---------------- 45
Query: 74 LLGLSVSKKVGNAVKRNLIKRRLRSLTLKHAALCQGLALVFVPRSDCYHLDFWALEKHFL 133
+GLSVSKK+GNAV RN IKR +R L+ + + + R L + +K
Sbjct: 46 -VGLSVSKKIGNAVMRNRIKRLIRQAFLEEKERLKEKDYIIIARKPASQLTYEETKKSLQ 104
Query: 134 EMLTSIKNYMNKALK 148
+ Y + K
Sbjct: 105 HLFRKSSLYKKSSSK 119
>pdb|1D6T|A Chain A, Rnase P Protein From Staphylococcus Aureus
Length = 117
Score = 45.1 bits (105), Expect = 4e-06
Identities = 36/130 (27%), Positives = 58/130 (43%), Gaps = 21/130 (16%)
Query: 19 LKNKSEFDRVYQKGFKKHNPFFSLFVLDLSQEPPKEKAGFKDPLFCRLKDKKTLYLLGLS 78
+K ++F R+Y+KG N F ++ + KE F+ LG+S
Sbjct: 9 IKKNADFQRIYKKGHSVANRQFVVYTCN-----NKEIDHFR---------------LGIS 48
Query: 79 VSKKVGNAVKRNLIKRRLRSLTLKHAALCQGLALVFVPRSDCYHLDFWALEKHFLEMLTS 138
VSKK+GNAV RN IKR +R H + ++ + R + ++ + LE +
Sbjct: 49 VSKKLGNAVLRNKIKRAIRENFKVHKSHILAKDIIVIARQPAKDMTTLQIQ-NSLEHVLK 107
Query: 139 IKNYMNKALK 148
I NK +K
Sbjct: 108 IAKVFNKKIK 117
>pdb|1DRK| D-Ribose-Binding Protein Mutant With Ile 132 Replaced By Thr And
Gly 134 Replaced By Ala (I132t,G134a)
Length = 271
Score = 26.2 bits (56), Expect = 1.9
Identities = 19/49 (38%), Positives = 26/49 (52%), Gaps = 4/49 (8%)
Query: 40 FSLFVLDLSQEPPKEKAGFKDPLFCRLKDKKTLYLLGLSVSKKVGNAVK 88
++L VLD P KE A +D ++ K L L+ + S VGNAVK
Sbjct: 32 YNLVVLDSQNNPAKELANVQD---LTVRGTKIL-LINPTDSDAVGNAVK 76
>pdb|1DRJ| D-Ribose-Binding Protein Mutant With Gly 134 Replaced By Arg
(G134r) Complexed With Beta-D-Ribose
Length = 271
Score = 26.2 bits (56), Expect = 1.9
Identities = 19/49 (38%), Positives = 26/49 (52%), Gaps = 4/49 (8%)
Query: 40 FSLFVLDLSQEPPKEKAGFKDPLFCRLKDKKTLYLLGLSVSKKVGNAVK 88
++L VLD P KE A +D ++ K L L+ + S VGNAVK
Sbjct: 32 YNLVVLDSQNNPAKELANVQD---LTVRGTKIL-LINPTDSDAVGNAVK 76
>pdb|2DRI| D-Ribose-Binding Protein Complexed With Beta-D-Ribose
pdb|1URP|A Chain A, D-Ribose-Binding Protein From Escherichia Coli
pdb|1URP|B Chain B, D-Ribose-Binding Protein From Escherichia Coli
pdb|1URP|C Chain C, D-Ribose-Binding Protein From Escherichia Coli
pdb|1URP|D Chain D, D-Ribose-Binding Protein From Escherichia Coli
Length = 271
Score = 26.2 bits (56), Expect = 1.9
Identities = 19/49 (38%), Positives = 26/49 (52%), Gaps = 4/49 (8%)
Query: 40 FSLFVLDLSQEPPKEKAGFKDPLFCRLKDKKTLYLLGLSVSKKVGNAVK 88
++L VLD P KE A +D ++ K L L+ + S VGNAVK
Sbjct: 32 YNLVVLDSQNNPAKELANVQD---LTVRGTKIL-LINPTDSDAVGNAVK 76
>pdb|1BA2|A Chain A, D67r Mutant Of D-Ribose-Binding Protein From Escherichia
Coli
pdb|1BA2|B Chain B, D67r Mutant Of D-Ribose-Binding Protein From Escherichia
Coli
Length = 271
Score = 26.2 bits (56), Expect = 1.9
Identities = 19/49 (38%), Positives = 26/49 (52%), Gaps = 4/49 (8%)
Query: 40 FSLFVLDLSQEPPKEKAGFKDPLFCRLKDKKTLYLLGLSVSKKVGNAVK 88
++L VLD P KE A +D ++ K L L+ + S VGNAVK
Sbjct: 32 YNLVVLDSQNNPAKELANVQD---LTVRGTKIL-LINPTRSDAVGNAVK 76
>pdb|1H6H|A Chain A, Structure Of The Px Domain From P40phox Bound To
Phosphatidylinositol 3-Phosphate
Length = 143
Score = 25.8 bits (55), Expect = 2.5
Identities = 28/119 (23%), Positives = 53/119 (44%), Gaps = 13/119 (10%)
Query: 4 ELRAEKSFPSKPYDSLKNKSEFDRVYQKGFKKHNPFFSLFVLDLSQEPPKEKAGFKDPLF 63
+LRAE F P D + + D ++GF H +FV+++ K K G K ++
Sbjct: 5 QLRAESDFEQLPDDVAISANIADIEEKRGFTSH----FVFVIEV-----KTKGGSKYLIY 55
Query: 64 CRLKDKKTLYLLGLSVSKKVGNAVKRNLIKRRLRSLTLK-HAALCQGLALVFVPRSDCY 121
R + + L + ++ G K + + L +L K + + Q +A + +P + Y
Sbjct: 56 RRYRQ---FHALQSKLEERFGPDSKSSALACTLPTLPAKVYVGVKQEIAEMRIPALNAY 111
>pdb|1MYR| Myrosinase From Sinapis Alba
Length = 501
Score = 25.0 bits (53), Expect = 4.3
Identities = 15/36 (41%), Positives = 18/36 (49%), Gaps = 3/36 (8%)
Query: 26 DRVYQKGFKKHNPFFSLFVLDLSQEPPKEKAGFKDP 61
D + +KG PF +LF DL Q E GF DP
Sbjct: 126 DGLIKKGI---TPFVTLFHWDLPQTLQDEYEGFLDP 158
>pdb|1DWA|M Chain M, Study On Radiation Damage On A Cryocooled Crystal. Part 1:
Structure Prior To Irradiation
pdb|1DWF|M Chain M, Study On Radiation Damage On A Cryocooled Crystal. Part 2:
Structure After Irradiation With 9.110e15 Photons
pdb|1DWG|M Chain M, Study On Radiation Damage On A Cryocooled Crystal: Part 3:
Structure After Irradiation With 18.210e15 Photons
pdb|1DWH|M Chain M, Study On Radiation Damage On A Cryocooled Crystal. Part 4:
Structure After Irradiation With 27.210e15 Photons
pdb|1DWI|M Chain M, Study On Radiation Damage On A Cryocooled Crystal. Part 5:
Structure After Irradiation With 54.010e15 Photons
pdb|1DWJ|M Chain M, Study On Radiation Damage On A Cryocooled Crystal. Refined
Part 6: Structure After A Radiation Dose Of 5410e15
Photon
Length = 499
Score = 24.3 bits (51), Expect = 7.3
Identities = 12/24 (50%), Positives = 13/24 (54%)
Query: 38 PFFSLFVLDLSQEPPKEKAGFKDP 61
PF +LF DL Q E GF DP
Sbjct: 133 PFVTLFHWDLPQTLQDEYEGFLDP 156
>pdb|1E4M|M Chain M, Myrosinase From Sinapis Alba
pdb|1E6S|M Chain M, Myrosinase From Sinapis Alba With Bound
Gluco-Hydroximolactam And Sulfate
pdb|1E6Q|M Chain M, Myrosinase From Sinapis Alba With The Bound Transition
State Analogue Gluco-Tetrazole
pdb|1E73|M Chain M, 2-F-Glucosylated Myrosinase From Sinapis Alba With Bound
L-Ascorbate
pdb|1E71|M Chain M, Myrosinase From Sinapis Alba With Bound Ascorbate
pdb|1E72|M Chain M, Myrosinase From Sinapis Alba With Bound
Gluco-Hydroximolactam And Sulfate Or Ascorbate
pdb|1E6X|M Chain M, Myrosinase From Sinapis Alba With A Bound Transition State
Analogue,D-Glucono-1,5-Lactone
pdb|1E70|M Chain M, 2-F-Glucosylated Myrosinase From Sinapis Alba
Length = 501
Score = 24.3 bits (51), Expect = 7.3
Identities = 12/24 (50%), Positives = 13/24 (54%)
Query: 38 PFFSLFVLDLSQEPPKEKAGFKDP 61
PF +LF DL Q E GF DP
Sbjct: 135 PFVTLFHWDLPQTLQDEYEGFLDP 158
>pdb|1DGU|A Chain A, Homology-Based Model Of Calcium-Saturated Cib
(Calcium-And Integrin-Binding Protein)
pdb|1DGV|A Chain A, Homology-Based Model Of Apo Cib (Calcium-And Integrin-
Binding Protein)
Length = 183
Score = 23.9 bits (50), Expect = 9.6
Identities = 16/60 (26%), Positives = 26/60 (42%), Gaps = 7/60 (11%)
Query: 1 MPDELRAEKSFPSKPYDSLKNKSEFDRVYQKGFKKHNPFFSLFVLDLSQEPPKEKAGFKD 60
+P E R+ +S SL+ + F+++ K NPF S P K+ F+D
Sbjct: 30 LPQEQRSVES-------SLRAQVPFEQILSLPELKANPFKERICRVFSTSPAKDSLSFED 82
>pdb|1AMX| Collagen-Binding Domain From A Staphylococcus Aureus Adhesin
Length = 180
Score = 23.9 bits (50), Expect = 9.6
Identities = 12/47 (25%), Positives = 20/47 (42%)
Query: 8 EKSFPSKPYDSLKNKSEFDRVYQKGFKKHNPFFSLFVLDLSQEPPKE 54
EK+FP K+ D +G+ +N F + ++ E KE
Sbjct: 106 EKAFPGSKITVDNTKNTIDVTIPQGYGSYNSFSINYKTKITNEQQKE 152
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
Posted date: Dec 20, 2002 11:08 AM
Number of letters in database: 2,899,336
Number of sequences in database: 13,198
Lambda K H
0.322 0.138 0.408
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 916,514
Number of Sequences: 13198
Number of extensions: 33835
Number of successful extensions: 66
Number of sequences better than 10.0: 12
Number of HSP's better than 10.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 59
Number of HSP's gapped (non-prelim): 12
length of query: 161
length of database: 2,899,336
effective HSP length: 81
effective length of query: 80
effective length of database: 1,830,298
effective search space: 146423840
effective search space used: 146423840
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: 50 (23.9 bits)