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|15646176|ref|NP_208360.1| hypothetical protein
[Helicobacter pylori 26695]
(197 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|1MN4|A Chain A, Structure Of Ndt80 (Residues 59-340) Dn... 28 0.71
pdb|1L9U|E Chain E, Thermus Aquaticus Rna Polymerase Holoen... 25 4.6
pdb|1KQ1|A Chain A, 1.55 A Crystal Structure Of The Pleiotr... 25 4.6
pdb|1C77|A Chain A, Staphylokinase (Sak) Dimer >gi|9954959|... 25 6.0
pdb|1UOK| Crystal Structure Of B. Cereus Oligo-1,6-Glucos... 25 6.0
pdb|1PIN|A Chain A, Pin1 Peptidyl-Prolyl Cis-Trans Isomeras... 25 7.9
pdb|1H2H|A Chain A, Crystal Structure Of Tm1643 25 7.9
pdb|1J5P|A Chain A, Crystal Structure Of Conserved Hypothet... 25 7.9
pdb|1F8A|B Chain B, Structural Basis For The Phosphoserine-... 25 7.9
>pdb|1MN4|A Chain A, Structure Of Ndt80 (Residues 59-340) Dna-Binding Domain
Core
Length = 282
Score = 28.1 bits (61), Expect = 0.71
Identities = 21/76 (27%), Positives = 36/76 (46%), Gaps = 4/76 (5%)
Query: 36 SVVSKENIPKIELENFKAFQINDKILDLSIEGKKALQYDDHEIFFDSKIKRYDEDTIESV 95
++VS +L+ F + + D S+EG+ +QY +I K K D+DT ++
Sbjct: 57 TLVSTFETANCDLDTFLKSSFDLLVEDSSVEGRLRVQYFAIKI----KAKNDDDDTEINL 112
Query: 96 ESPKAKRQQDLYFFPN 111
AKR + F P+
Sbjct: 113 VQHTAKRDKGPQFCPS 128
>pdb|1L9U|E Chain E, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
pdb|1L9U|N Chain N, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
pdb|1L9Z|E Chain E, Thermus Aquaticus Rna Polymerase HoloenzymeFORK-Junction
Promoter Dna Complex At 6.5 A Resolution
pdb|1I6V|E Chain E, Thermus Aquaticus Core Rna Polymerase-Rifampicin Complex
pdb|1HQM|E Chain E, Crystal Structure Of Thermus Aquaticus Core Rna
Polymerase- Includes Complete Structure With Side-Chains
(Except For Disordered Regions)-Further Refined From
Original Deposition-Contains Additional Sequence
Information
Length = 99
Score = 25.4 bits (54), Expect = 4.6
Identities = 11/30 (36%), Positives = 16/30 (52%)
Query: 86 RYDEDTIESVESPKAKRQQDLYFFPNGVTY 115
R+ +E E PK + + LY PN VT+
Sbjct: 34 RFKNTVLEPEERPKMRTLEGLYDDPNAVTW 63
>pdb|1KQ1|A Chain A, 1.55 A Crystal Structure Of The Pleiotropic
Translational Regulator, Hfq
pdb|1KQ1|B Chain B, 1.55 A Crystal Structure Of The Pleiotropic
Translational Regulator, Hfq
pdb|1KQ1|H Chain H, 1.55 A Crystal Structure Of The Pleiotropic
Translational Regulator, Hfq
pdb|1KQ1|I Chain I, 1.55 A Crystal Structure Of The Pleiotropic
Translational Regulator, Hfq
pdb|1KQ1|K Chain K, 1.55 A Crystal Structure Of The Pleiotropic
Translational Regulator, Hfq
pdb|1KQ1|M Chain M, 1.55 A Crystal Structure Of The Pleiotropic
Translational Regulator, Hfq
pdb|1KQ1|S Chain S, 1.55 A Crystal Structure Of The Pleiotropic
Translational Regulator, Hfq
pdb|1KQ1|T Chain T, 1.55 A Crystal Structure Of The Pleiotropic
Translational Regulator, Hfq
pdb|1KQ1|Y Chain Y, 1.55 A Crystal Structure Of The Pleiotropic
Translational Regulator, Hfq
pdb|1KQ1|N Chain N, 1.55 A Crystal Structure Of The Pleiotropic
Translational Regulator, Hfq
pdb|1KQ1|R Chain R, 1.55 A Crystal Structure Of The Pleiotropic
Translational Regulator, Hfq
pdb|1KQ1|W Chain W, 1.55 A Crystal Structure Of The Pleiotropic
Translational Regulator, Hfq
pdb|1KQ2|A Chain A, Crystal Structure Of An Hfq-Rna Complex
pdb|1KQ2|B Chain B, Crystal Structure Of An Hfq-Rna Complex
pdb|1KQ2|H Chain H, Crystal Structure Of An Hfq-Rna Complex
pdb|1KQ2|I Chain I, Crystal Structure Of An Hfq-Rna Complex
pdb|1KQ2|K Chain K, Crystal Structure Of An Hfq-Rna Complex
pdb|1KQ2|M Chain M, Crystal Structure Of An Hfq-Rna Complex
Length = 77
Score = 25.4 bits (54), Expect = 4.6
Identities = 16/53 (30%), Positives = 29/53 (54%), Gaps = 2/53 (3%)
Query: 37 VVSKENIPKIELENFKAFQINDKILDLSIEGKKAL--QYDDHEIFFDSKIKRY 87
+++ ENI LENFKA Q + L+ K + +YD + + +S+ K++
Sbjct: 1 MIANENIQDKALENFKANQTEVTVFFLNGFQMKGVIEEYDKYVVSLNSQGKQH 53
>pdb|1C77|A Chain A, Staphylokinase (Sak) Dimer
pdb|1C78|A Chain A, Staphylokinase (Sak) Dimer
pdb|1C79|A Chain A, Staphylokinase (Sak) Dimer
pdb|1C77|B Chain B, Staphylokinase (Sak) Dimer
pdb|1C78|B Chain B, Staphylokinase (Sak) Dimer
pdb|1C79|B Chain B, Staphylokinase (Sak) Dimer
pdb|1C76|A Chain A, Staphylokinase (Sak) Monomer
Length = 136
Score = 25.0 bits (53), Expect = 6.0
Identities = 26/103 (25%), Positives = 41/103 (39%), Gaps = 20/103 (19%)
Query: 115 YKRSDDSSFWSETGIY-NHKEQNFKGKGRFIL-------------TSKDSKIE-----GL 155
YK+ DD+S++ TG Y GKG +L T KIE L
Sbjct: 9 YKKGDDASYFEPTGPYLMVNVTGVDGKGNELLSPHYVEFPIKPGTTLTKEKIEYYVEWAL 68
Query: 156 DISYSHALAIIEAQ-SIQAHLFLDEIKQSQKEKKKFPTFKGGF 197
D + ++E S + + + + ++E K FP + GF
Sbjct: 69 DATAYKEFRVVELDPSAKIEVTYYDKNKKKEETKSFPITEKGF 111
>pdb|1UOK| Crystal Structure Of B. Cereus Oligo-1,6-Glucosidase
Length = 558
Score = 25.0 bits (53), Expect = 6.0
Identities = 18/63 (28%), Positives = 27/63 (42%)
Query: 67 GKKALQYDDHEIFFDSKIKRYDEDTIESVESPKAKRQQDLYFFPNGVTYKRSDDSSFWSE 126
GK+ + ++ F +YDE T E +K+Q DL + V + FW E
Sbjct: 131 GKEGKEPNNWGAAFSGSAWQYDEMTDEYYLHLFSKKQPDLNWDNEKVRQDVYEMMKFWLE 190
Query: 127 TGI 129
GI
Sbjct: 191 KGI 193
>pdb|1PIN|A Chain A, Pin1 Peptidyl-Prolyl Cis-Trans Isomerase From Homo Sapiens
Length = 163
Score = 24.6 bits (52), Expect = 7.9
Identities = 20/51 (39%), Positives = 25/51 (48%), Gaps = 6/51 (11%)
Query: 83 KIKRYDEDTIESVESP-----KAKRQQDLYFFPNGVTYKRSDDSSFWSETG 128
KIK +ED ES+ S AK + DL F G K +D+SF TG
Sbjct: 95 KIKSGEED-FESLASQFSDCSSAKARGDLGAFSRGQMQKPFEDASFALRTG 144
>pdb|1H2H|A Chain A, Crystal Structure Of Tm1643
Length = 241
Score = 24.6 bits (52), Expect = 7.9
Identities = 23/92 (25%), Positives = 39/92 (42%), Gaps = 12/92 (13%)
Query: 37 VVSKENIPK--IELENFKAFQINDKILDLSIEGKKALQYDDHEIFFDSKIKRYDEDTIES 94
++ NI K +EL NF+ D+I S + ++ D+ ++ D T+
Sbjct: 5 IIGXGNIGKKLVELGNFEKIYAYDRI---SKDIPGVVRLDEFQV-------PSDVSTVVE 54
Query: 95 VESPKAKRQQDLYFFPNGVTYKRSDDSSFWSE 126
SP+A ++ L N V Y S+F E
Sbjct: 55 CASPEAVKEYSLQILKNPVNYIIISTSAFADE 86
>pdb|1J5P|A Chain A, Crystal Structure Of Conserved Hypothetical Protein
(Tm1643) From Thermotoga Maritima At 1.9 A Resolution
Length = 253
Score = 24.6 bits (52), Expect = 7.9
Identities = 23/92 (25%), Positives = 39/92 (42%), Gaps = 12/92 (13%)
Query: 37 VVSKENIPK--IELENFKAFQINDKILDLSIEGKKALQYDDHEIFFDSKIKRYDEDTIES 94
++ NI K +EL NF+ D+I S + ++ D+ ++ D T+
Sbjct: 17 IIGMGNIGKKLVELGNFEKIYAYDRI---SKDIPGVVRLDEFQV-------PSDVSTVVE 66
Query: 95 VESPKAKRQQDLYFFPNGVTYKRSDDSSFWSE 126
SP+A ++ L N V Y S+F E
Sbjct: 67 CASPEAVKEYSLQILKNPVNYIIISTSAFADE 98
>pdb|1F8A|B Chain B, Structural Basis For The Phosphoserine-Proline Recognition
By Group Iv Ww Domains
Length = 167
Score = 24.6 bits (52), Expect = 7.9
Identities = 20/51 (39%), Positives = 25/51 (48%), Gaps = 6/51 (11%)
Query: 83 KIKRYDEDTIESVESP-----KAKRQQDLYFFPNGVTYKRSDDSSFWSETG 128
KIK +ED ES+ S AK + DL F G K +D+SF TG
Sbjct: 99 KIKSGEED-FESLASQFSDCSSAKARGDLGAFSRGQMQKPFEDASFALRTG 148
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 0.136 0.379
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,066,121
Number of Sequences: 13198
Number of extensions: 42945
Number of successful extensions: 94
Number of sequences better than 10.0: 9
Number of HSP's better than 10.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 92
Number of HSP's gapped (non-prelim): 9
length of query: 197
length of database: 2,899,336
effective HSP length: 83
effective length of query: 114
effective length of database: 1,803,902
effective search space: 205644828
effective search space used: 205644828
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: 52 (24.6 bits)