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|15645842|ref|NP_208020.1| invasion protein (invA)
[Helicobacter pylori 26695]
(155 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|1JKN|A Chain A, Solution Structure Of The Nudix Enzyme ... 105 2e-24
pdb|1TUM| Mutt Pyrophosphohydrolase-Metal-Nucleotide-Meta... 35 0.003
pdb|1K2E|A Chain A, Crystal Structure Of A Nudix Protein Fr... 32 0.025
pdb|1KT9|A Chain A, Crystal Structure Of C. Elegans Ap4a Hy... 30 0.095
pdb|1KHZ|A Chain A, Structure Of The Adpr-Ase In Complex Wi... 27 1.0
pdb|1LBF|A Chain A, Crystal Structure Of Indole-3-Glycerol ... 25 3.0
pdb|1IGS| Indole-3-Glycerolphosphate Synthase From Sulfol... 25 3.0
pdb|1A26| The Catalytic Fragment Of Poly(Adp-Ribose) Poly... 25 5.2
pdb|1EFY|A Chain A, Crystal Structure Of The Catalytic Frag... 25 5.2
pdb|1QDN|C Chain C, Amino Terminal Domain Of The N-Ethylmal... 24 6.8
pdb|1KQF|A Chain A, Formate Dehydrogenase N From E. Coli >g... 24 6.8
>pdb|1JKN|A Chain A, Solution Structure Of The Nudix Enzyme Diadenosine
Tetraphosphate Hydrolase From Lupinus Angustifolius
Complexed With Atp
pdb|1F3Y|A Chain A, Solution Structure Of The Nudix Enzyme Diadenosine
Tetraphosphate Hydrolase From Lupinus Angustifolius L
Length = 165
Score = 105 bits (262), Expect = 2e-24
Identities = 57/153 (37%), Positives = 83/153 (53%), Gaps = 13/153 (8%)
Query: 6 YRPNVAAIIMSPDYPNACEVFIAERIDIEGAWQFPQGGIDEGETPLEALHRELLEEIGTN 65
YR NV +M+ D ++F A R+DI AWQ PQGGIDEGE P A REL EE G
Sbjct: 13 YRRNVGICLMNNDK----KIFAASRLDIPDAWQMPQGGIDEGEDPRNAAIRELREETGVT 68
Query: 66 EIEILAQYPRWIAYDFPSNMEHKF-----YSFDGQKQRYFLVRL----KHTNNIDLNKHT 116
E++A+ P W+ YDFP + K + GQ Q++FL + + N +
Sbjct: 69 SAEVIAEVPYWLTYDFPPKVREKLNIQWGSDWKGQAQKWFLFKFTGQDQEINLLGDGSEK 128
Query: 117 PEFRAYQFIHLKDLLKRIVPFKRQVYRQVIAYF 149
PEF + ++ + L+ V FK+ VY++V++ F
Sbjct: 129 PEFGEWSWVTPEQLIDLTVEFKKPVYKEVLSVF 161
>pdb|1TUM| Mutt Pyrophosphohydrolase-Metal-Nucleotide-Metal Complex, Nmr,
16 Structures
pdb|1MUT| Nmr Study Of Mutt Enzyme, A Nucleoside Triphosphate
Pyrophosphohydrolase
Length = 129
Score = 35.4 bits (80), Expect = 0.003
Identities = 19/43 (44%), Positives = 26/43 (60%), Gaps = 3/43 (6%)
Query: 24 EVFIAERI---DIEGAWQFPQGGIDEGETPLEALHRELLEEIG 63
E+FI R + +FP G I+ GETP +A+ REL EE+G
Sbjct: 17 EIFITRRAADAHMANKLEFPGGKIEMGETPEQAVVRELQEEVG 59
>pdb|1K2E|A Chain A, Crystal Structure Of A Nudix Protein From Pyrobaculum
Aerophilum
pdb|1K2E|B Chain B, Crystal Structure Of A Nudix Protein From Pyrobaculum
Aerophilum
pdb|1K26|A Chain A, Structure Of A Nudix Protein From Pyrobaculum Aerophilum
Solved By The Single Wavelength Anomolous Scattering
Method
pdb|1JRK|D Chain D, Crystal Structure Of A Nudix Protein From Pyrobaculum
Aerophilum Reveals A Dimer With Intertwined Beta Sheets
pdb|1JRK|A Chain A, Crystal Structure Of A Nudix Protein From Pyrobaculum
Aerophilum Reveals A Dimer With Intertwined Beta Sheets
pdb|1JRK|C Chain C, Crystal Structure Of A Nudix Protein From Pyrobaculum
Aerophilum Reveals A Dimer With Intertwined Beta Sheets
pdb|1K26|B Chain B, Structure Of A Nudix Protein From Pyrobaculum Aerophilum
Solved By The Single Wavelength Anomolous Scattering
Method
pdb|1JRK|B Chain B, Crystal Structure Of A Nudix Protein From Pyrobaculum
Aerophilum Reveals A Dimer With Intertwined Beta Sheets
Length = 156
Score = 32.3 bits (72), Expect = 0.025
Identities = 13/29 (44%), Positives = 19/29 (64%)
Query: 35 GAWQFPQGGIDEGETPLEALHRELLEEIG 63
G + +P G ++ ETP+EA+ RE EE G
Sbjct: 23 GVYIYPGGHVEHNETPIEAVKREFEEETG 51
>pdb|1KT9|A Chain A, Crystal Structure Of C. Elegans Ap4a Hydrolase
pdb|1KTG|A Chain A, Crystal Structure Of A C. Elegans Ap4a Hydrolase Binary
Complex
pdb|1KTG|B Chain B, Crystal Structure Of A C. Elegans Ap4a Hydrolase Binary
Complex
Length = 138
Score = 30.4 bits (67), Expect = 0.095
Identities = 23/98 (23%), Positives = 45/98 (45%), Gaps = 14/98 (14%)
Query: 37 WQFPQGGIDEGETPLEALHRELLEEIGTNEIEILAQYPRWIAYDFPSNMEHKFYSFDGQK 96
W P+G +D GE +A RE EE + ++ E FY G+
Sbjct: 32 WTPPKGHVDPGEDEWQAAIRETKEEANITKEQLTIH---------EDCHETLFYEAKGKP 82
Query: 97 Q--RYFLVRLKHTNNIDLNKHTPEFRAYQFIHLKDLLK 132
+ +Y+L +L + +++ L+ E + +++ L+D +K
Sbjct: 83 KSVKYWLAKLNNPDDVQLSH---EHQNWKWCELEDAIK 117
>pdb|1KHZ|A Chain A, Structure Of The Adpr-Ase In Complex With Ampcpr And Mg
pdb|1KHZ|B Chain B, Structure Of The Adpr-Ase In Complex With Ampcpr And Mg
pdb|1G9Q|A Chain A, Complex Structure Of The Adpr-Ase And Its Substrate Adp-
Ribose
pdb|1GA7|A Chain A, Crystal Structure Of The Adp-Ribose Pyrophosphatase In
Complex With Gd+3
pdb|1G0S|B Chain B, The Crystal Structure Of The E.Coli Adp-Ribose
Pyrophosphatase
pdb|1G9Q|B Chain B, Complex Structure Of The Adpr-Ase And Its Substrate Adp-
Ribose
pdb|1GA7|B Chain B, Crystal Structure Of The Adp-Ribose Pyrophosphatase In
Complex With Gd+3
pdb|1G0S|A Chain A, The Crystal Structure Of The E.Coli Adp-Ribose
Pyrophosphatase
Length = 209
Score = 26.9 bits (58), Expect = 1.0
Identities = 20/60 (33%), Positives = 29/60 (48%), Gaps = 8/60 (13%)
Query: 12 AIIMSPDYPNACEVFIAERIDI------EGAW--QFPQGGIDEGETPLEALHRELLEEIG 63
A ++ P P EV + E+I I E W + G I+EGE+ + RE +EE G
Sbjct: 59 AAVLLPFDPVRDEVVLIEQIRIAAYDTSETPWLLEMVAGMIEEGESVEDVARREAIEEAG 118
>pdb|1LBF|A Chain A, Crystal Structure Of Indole-3-Glycerol Phosphate Syntase
(Igps)with Reduced
1-(O-Caboxyphenylamino)-1-Deoxyribulose 5-Phosphate
(Rcdrp)
pdb|1LBL|A Chain A, Crystal Structure Of Indole-3-Glycerol Phosphate Synthase
(Igps) In Complex With 1-(O-Carboxyphenylamino)-1-
Deoxyribulose 5'-Phosphate (Cdrp)
pdb|1A53| Complex Of Indole-3-Glycerolphosphate Synthase From Sulfolobus
Solfataricus With Indole-3-Glycerolphosphate At 2.0 A
Resolution
Length = 247
Score = 25.4 bits (54), Expect = 3.0
Identities = 13/43 (30%), Positives = 24/43 (55%)
Query: 110 IDLNKHTPEFRAYQFIHLKDLLKRIVPFKRQVYRQVIAYFKRE 152
+ L+ P FRA + + L +RI+ F ++ +IA +KR+
Sbjct: 12 VQLSLRRPSFRASRQRPIISLNERILEFNKRNITAIIAEYKRK 54
>pdb|1IGS| Indole-3-Glycerolphosphate Synthase From Sulfolobus Solfataricus
At 2.0 A Resolution
pdb|1JUL| Indole-3-Glycerolphosphate Synthase From Sulfolobus Solfataricus
In A Second Orthorhombic Crystal Form
pdb|1JUK| Indole-3-Glycerolphosphate Synthase From Sulfolobus Solfataricus
In A Trigonal Crystal Form
Length = 248
Score = 25.4 bits (54), Expect = 3.0
Identities = 13/43 (30%), Positives = 24/43 (55%)
Query: 110 IDLNKHTPEFRAYQFIHLKDLLKRIVPFKRQVYRQVIAYFKRE 152
+ L+ P FRA + + L +RI+ F ++ +IA +KR+
Sbjct: 13 VQLSLRRPSFRASRQRPIISLNERILEFNKRNITAIIAEYKRK 55
>pdb|1A26| The Catalytic Fragment Of Poly(Adp-Ribose) Polymerase Complexed
With Carba-Nad
pdb|1PAX| The Catalytic Fragment Of Poly(Adp-Ribose) Polymerase Complexed
With 3,4-Dihydro-5-Methyl-Isoquinolinone
pdb|2PAX| The Catalytic Fragment Of Poly(Adp-Ribose) Polymerase Complexed
With 4-Amino-1,8-Naphthalimide
pdb|3PAX| The Catalytic Fragment Of Poly(Adp-Ribose) Polymerase Complexed
With 3-Methoxybenzamide
pdb|4PAX| The Catalytic Fragment Of Poly(Adp-Ribose) Polymerase Complexed
With 8-Hydroxy-2-Methyl-3-Hydro-Quinazolin-4-One
pdb|2PAW| The Catalytic Fragment Of Poly(Adp-Ribose) Polymerase
Length = 361
Score = 24.6 bits (52), Expect = 5.2
Identities = 25/110 (22%), Positives = 50/110 (44%), Gaps = 13/110 (11%)
Query: 13 IIMSPDYPNACEVFIAERIDIEGAWQFPQGGIDEGE-TPLEALHRELLEEI-----GTNE 66
++ + +Y A + +DIE A+ +GG ++G+ P++ + +L +I + E
Sbjct: 98 LLSNLEYIQAKVQMLDNLLDIEVAYSLLRGGNEDGDKDPIDINYEKLRTDIKVVDKDSEE 157
Query: 67 IEILAQYPR------WIAYDFPSNMEHKFYSFDGQKQRYFLVRLKHTNNI 110
+I+ QY + AYD +E +G+ QRY + H +
Sbjct: 158 AKIIKQYVKNTHAATHNAYDL-KVVEIFRIEREGESQRYKPFKQLHNRQL 206
>pdb|1EFY|A Chain A, Crystal Structure Of The Catalytic Fragment Of Poly (Adp-
Ribose) Polymerase Complexed With A Benzimidazole
Inhibitor
Length = 350
Score = 24.6 bits (52), Expect = 5.2
Identities = 25/110 (22%), Positives = 50/110 (44%), Gaps = 13/110 (11%)
Query: 13 IIMSPDYPNACEVFIAERIDIEGAWQFPQGGIDEGE-TPLEALHRELLEEI-----GTNE 66
++ + +Y A + +DIE A+ +GG ++G+ P++ + +L +I + E
Sbjct: 90 LLSNLEYIQAKVQMLDNLLDIEVAYSLLRGGNEDGDKDPIDINYEKLRTDIKVVDKDSEE 149
Query: 67 IEILAQYPR------WIAYDFPSNMEHKFYSFDGQKQRYFLVRLKHTNNI 110
+I+ QY + AYD +E +G+ QRY + H +
Sbjct: 150 AKIIKQYVKNTHAATHNAYDL-KVVEIFRIEREGESQRYKPFKQLHNRQL 198
>pdb|1QDN|C Chain C, Amino Terminal Domain Of The N-Ethylmaleimide Sensitive
Fusion Protein (Nsf)
pdb|1QDN|A Chain A, Amino Terminal Domain Of The N-Ethylmaleimide Sensitive
Fusion Protein (Nsf)
pdb|1QDN|B Chain B, Amino Terminal Domain Of The N-Ethylmaleimide Sensitive
Fusion Protein (Nsf)
Length = 204
Score = 24.3 bits (51), Expect = 6.8
Identities = 15/55 (27%), Positives = 23/55 (41%), Gaps = 4/55 (7%)
Query: 75 RWIAYDFPSNMEHKFYSFDGQKQRYFLVRLK----HTNNIDLNKHTPEFRAYQFI 125
+W +E YSFD KQ + ++ NID N + + A +FI
Sbjct: 69 KWAGLSIGQEIEVALYSFDKAKQCIGTMTIEIDFLQKKNIDSNPYDTDKMAAEFI 123
>pdb|1KQF|A Chain A, Formate Dehydrogenase N From E. Coli
pdb|1KQG|A Chain A, Formate Dehydrogenase N From E. Coli
Length = 1015
Score = 24.3 bits (51), Expect = 6.8
Identities = 9/33 (27%), Positives = 18/33 (54%)
Query: 90 YSFDGQKQRYFLVRLKHTNNIDLNKHTPEFRAY 122
+ F+G ++ ++ N D N TPE++A+
Sbjct: 976 WGFEGVARKGYIANTLTPNVGDANSQTPEYKAF 1008
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
0.324 0.143 0.439
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,017,374
Number of Sequences: 13198
Number of extensions: 42932
Number of successful extensions: 178
Number of sequences better than 10.0: 11
Number of HSP's better than 10.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 170
Number of HSP's gapped (non-prelim): 11
length of query: 155
length of database: 2,899,336
effective HSP length: 81
effective length of query: 74
effective length of database: 1,830,298
effective search space: 135442052
effective search space used: 135442052
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 50 (23.9 bits)