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|15645463|ref|NP_207637.1| thiamine biosynthesis
protein (thi) [Helicobacter pylori 26695]
(270 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|1JXI|A Chain A, 4-Amino-5-Hydroxymethyl-2-Methylpyrimid... 179 2e-46
pdb|1RK2|B Chain B, E. Coli Ribokinase Complexed With Ribos... 41 2e-04
pdb|1KYH|A Chain A, Structural Genomics, Hypothetical Prote... 31 0.13
pdb|2EQL| Lysozyme (Apo Form) 27 3.2
pdb|1IQU|A Chain A, Crystal Structure Of Photolyase-Thymine... 26 4.2
pdb|1H6U|A Chain A, Internalin H: Crystal Structure Of Fuse... 25 7.2
pdb|1BHE| Polygalacturonase From Erwinia Carotovora Ssp. ... 25 7.2
pdb|1QQY|A Chain A, X-Ray Crystal Structure Analysis Of Can... 25 9.4
pdb|1EL1|A Chain A, X-Ray Crystal Structure Analysis Of Can... 25 9.4
>pdb|1JXI|A Chain A, 4-Amino-5-Hydroxymethyl-2-Methylpyrimidine Phosphate
Kinase From Salmonella Typhimurium Complexed With
4-Amino-5- Hydroxymethyl-2-Methylpyrimidine
pdb|1JXI|B Chain B, 4-Amino-5-Hydroxymethyl-2-Methylpyrimidine Phosphate
Kinase From Salmonella Typhimurium Complexed With
4-Amino-5- Hydroxymethyl-2-Methylpyrimidine
pdb|1JXH|A Chain A, 4-Amino-5-Hydroxymethyl-2-Methylpyrimidine Phosphate
Kinase From Salmonella Typhimurium
pdb|1JXH|B Chain B, 4-Amino-5-Hydroxymethyl-2-Methylpyrimidine Phosphate
Kinase From Salmonella Typhimurium
Length = 288
Score = 179 bits (455), Expect = 2e-46
Identities = 107/257 (41%), Positives = 147/257 (56%), Gaps = 6/257 (2%)
Query: 9 LSIAGSDSGGGSGIQADLKAFQTLGVFGTSVITCITAQNTQGVHGVYPLSVESVKAQILA 68
L+IAG+D GG+GIQADLK F LG +G SVIT + A+NT GV VY + + V AQ+ +
Sbjct: 29 LTIAGTDPSGGAGIQADLKTFSALGAYGCSVITALVAENTCGVQSVYRIEPDFVAAQLDS 88
Query: 69 IRDDFSIKAFKMGALCNAQIIECVADTLETCDFGLCVLDPVMVAKNGALLLEEEAILSLK 128
+ D I K+G L I+E VA+ L+ VLD VM+AK+G LL AI +L+
Sbjct: 89 VFSDVRIDTTKIGMLAETDIVEAVAERLQRHHVRNVVLDTVMLAKSGDPLLSPSAIETLR 148
Query: 129 KRLLPTTHLLTPNLPEVYALTGVQVRDDKSASKAMG-VLRDLGVKNAVIKGGHTEHFQGE 187
RLLP L+TPNLPE AL + A G L +G + ++KGGH E Q
Sbjct: 149 VRLLPQVSLITPNLPEAAALLDAPHARTEQEMLAQGRALLAMGCEAVLMKGGHLEDAQ-- 206
Query: 188 YSNDWVFLEDAEFILNAKRFNTKNTHGTGCTLSSLIVGLLAQGLDLKNAISKAKELLTII 247
S DW+F + E +A R NTKNTHGTGCTLS+ + L + +++AK L+
Sbjct: 207 -SPDWLFTREGEQRFSAPRVNTKNTHGTGCTLSAALAALRPRHRSWGETVNEAKAWLSAA 265
Query: 248 I--QNPLNIGHGHGPLN 262
+ + L +G G GP++
Sbjct: 266 LAQADTLEVGKGIGPVH 282
>pdb|1RK2|B Chain B, E. Coli Ribokinase Complexed With Ribose And Adp, Solved
In Space Group P212121
pdb|1GQT|B Chain B, Activation Of Ribokinase By Monovalent Cations
pdb|1RKD| E. Coli Ribokinase Complexed With Ribose And Adp
pdb|1RK2|C Chain C, E. Coli Ribokinase Complexed With Ribose And Adp, Solved
In Space Group P212121
pdb|1GQT|C Chain C, Activation Of Ribokinase By Monovalent Cations
pdb|1RK2|A Chain A, E. Coli Ribokinase Complexed With Ribose And Adp, Solved
In Space Group P212121
pdb|1RK2|D Chain D, E. Coli Ribokinase Complexed With Ribose And Adp, Solved
In Space Group P212121
pdb|1RKA|A Chain A, The Apo Form Of E. Coli Ribokinase
pdb|1GQT|A Chain A, Activation Of Ribokinase By Monovalent Cations
pdb|1GQT|D Chain D, Activation Of Ribokinase By Monovalent Cations
pdb|1RKS|A Chain A, E. Coli Ribokinase In Complex With D-Ribose
Length = 309
Score = 40.8 bits (94), Expect = 2e-04
Identities = 20/53 (37%), Positives = 31/53 (57%)
Query: 127 LKKRLLPTTHLLTPNLPEVYALTGVQVRDDKSASKAMGVLRDLGVKNAVIKGG 179
L LL ++TPN E LTG++V +D+ A+KA VL + G++ +I G
Sbjct: 173 LPDELLALVDIITPNETEAEKLTGIRVENDEDAAKAAQVLHEKGIRTVLITLG 225
>pdb|1KYH|A Chain A, Structural Genomics, Hypothetical Protein In Sigy-Cydd
Intergenic Region
Length = 276
Score = 31.2 bits (69), Expect = 0.13
Identities = 61/245 (24%), Positives = 95/245 (37%), Gaps = 41/245 (16%)
Query: 5 YPQVLSIAGSDSGGGSGIQADLKAFQTLGVFGTSVITCITAQNTQGVHGVYPLSVESV-- 62
Y L +AGSD G+ + A L A ++ G + T++N + + P+ E+
Sbjct: 27 YGTALLLAGSDDXPGAALLAGLGAXRS----GLGKLVIGTSENV--IPLIVPVLPEATYW 80
Query: 63 -----KAQILAIRDDFSIKAFKMGALCNAQIIECVADTLETCDFGLCVLDPVMVAKNGAL 117
KA + + + A G L + ++ D + T D + +LD +AK
Sbjct: 81 RDGWKKAADAQLEETYRAIAIGPG-LPQTESVQQAVDHVLTADCPV-ILDAGALAKR--- 135
Query: 118 LLEEEAILSLKKRLLPTTHLLTPNLPEVYALTGVQVRD--DKSASKAMGVLRDLGVKNAV 175
+ KR P +LTP+ E + TGV V + K A A L V
Sbjct: 136 --------TYPKREGPV--ILTPHPGEFFRXTGVPVNELQKKRAEYAKEWAAQLQTV-IV 184
Query: 176 IKGGHTEHFQGEYSNDWVFLEDAEFILNAKRFNTKNTHGTGCTLSSLIVGLLAQGLDLKN 235
+KG T + D + LN GTG TL+ I+G L D K+
Sbjct: 185 LKGNQTV----------IAFPDGDCWLNPTGNGALAKGGTGDTLTGXILGXLCCHEDPKH 234
Query: 236 AISKA 240
A+ A
Sbjct: 235 AVLNA 239
>pdb|2EQL| Lysozyme (Apo Form)
Length = 129
Score = 26.6 bits (57), Expect = 3.2
Identities = 12/40 (30%), Positives = 20/40 (50%)
Query: 176 IKGGHTEHFQGEYSNDWVFLEDAEFILNAKRFNTKNTHGT 215
+K + F G +WV + + E N + FN KN +G+
Sbjct: 12 LKAQEMDGFGGYSLANWVCMAEYESNFNTRAFNGKNANGS 51
>pdb|1IQU|A Chain A, Crystal Structure Of Photolyase-Thymine Complex
pdb|1IQR|A Chain A, Crystal Structure Of Dna Photolyase From Thermus
Thermophilus
Length = 420
Score = 26.2 bits (56), Expect = 4.2
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 125 LSLKKRLLPTTHLLTPNLPEVY 146
L + LLP HLL P+LP Y
Sbjct: 112 LPVPLHLLPAPHLLPPDLPRAY 133
>pdb|1H6U|A Chain A, Internalin H: Crystal Structure Of Fused N-Terminal
Domains
Length = 308
Score = 25.4 bits (54), Expect = 7.2
Identities = 15/43 (34%), Positives = 19/43 (43%)
Query: 12 AGSDSGGGSGIQADLKAFQTLGVFGTSVITCITAQNTQGVHGV 54
AG + + QADL TL FGT V T Q + G+
Sbjct: 26 AGKSNVTDTVTQADLDGITTLSAFGTGVTTIEGVQYLNNLIGL 68
>pdb|1BHE| Polygalacturonase From Erwinia Carotovora Ssp. Carotovora
Length = 376
Score = 25.4 bits (54), Expect = 7.2
Identities = 13/43 (30%), Positives = 24/43 (55%)
Query: 37 TSVITCITAQNTQGVHGVYPLSVESVKAQILAIRDDFSIKAFK 79
T++ T TA+NT G+ + ++ + I D+ +IKA+K
Sbjct: 190 TTIKTPSTARNTDGIDPMSSKNITIAYSNIATGDDNVAIKAYK 232
>pdb|1QQY|A Chain A, X-Ray Crystal Structure Analysis Of Canine Milk Lysozyme
(Apo-Type)
Length = 130
Score = 25.0 bits (53), Expect = 9.4
Identities = 11/40 (27%), Positives = 21/40 (52%)
Query: 176 IKGGHTEHFQGEYSNDWVFLEDAEFILNAKRFNTKNTHGT 215
+K + F G +WV + + E N + FN +N++G+
Sbjct: 13 LKSMGMDGFHGYSLANWVCMAEYESNFNTQAFNGRNSNGS 52
>pdb|1EL1|A Chain A, X-Ray Crystal Structure Analysis Of Canine Milk Lysozyme
(Holo-Type)
pdb|1EL1|B Chain B, X-Ray Crystal Structure Analysis Of Canine Milk Lysozyme
(Holo-Type)
pdb|1I56|A Chain A, Solution Structure Of Ca2+-Bound State Of Canine Milk
Lysozyme
Length = 130
Score = 25.0 bits (53), Expect = 9.4
Identities = 11/40 (27%), Positives = 21/40 (52%)
Query: 176 IKGGHTEHFQGEYSNDWVFLEDAEFILNAKRFNTKNTHGT 215
+K + F G +WV + + E N + FN +N++G+
Sbjct: 13 LKSMGMDGFHGYSLANWVCMAEYESNFNTQAFNGRNSNGS 52
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
0.319 0.137 0.396
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,544,934
Number of Sequences: 13198
Number of extensions: 60280
Number of successful extensions: 146
Number of sequences better than 10.0: 9
Number of HSP's better than 10.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 137
Number of HSP's gapped (non-prelim): 9
length of query: 270
length of database: 2,899,336
effective HSP length: 87
effective length of query: 183
effective length of database: 1,751,110
effective search space: 320453130
effective search space used: 320453130
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)