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|15646166|ref|NP_208350.1| flagellar basal-body rod
protein (flgB) (proximal rod protein) [Helicobacter pylori 26695]
(140 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|1CK5|B Chain B, Ribosomal Protein L30-Mrna Complex From... 28 0.51
pdb|1KTK|A Chain A, Complex Of Streptococcal Pyrogenic Ente... 27 0.67
pdb|1CLQ|A Chain A, Crystal Structure Of A Replication Fork... 26 1.5
pdb|1IG9|A Chain A, Structure Of The Replicating Complex Of... 26 1.5
pdb|1HAV|B Chain B, Hepatitis A Virus 3c Proteinase 24 7.4
pdb|1HAV|A Chain A, Hepatitis A Virus 3c Proteinase 24 7.4
pdb|1QA7|A Chain A, Crystal Complex Of The 3c Proteinase Fr... 24 7.4
pdb|1QA7|B Chain B, Crystal Complex Of The 3c Proteinase Fr... 24 7.4
pdb|4XIA|A Chain A, D-Xylose Isomerase (E.C.5.3.1.5), D-Sor... 23 9.7
pdb|1PHO| Phosphoporin (Phoe) 23 9.7
pdb|1LOX| Rabbit Reticulocyte 15-Lipoxygenase 23 9.7
pdb|1MCW|W Chain W, Immunoglobulin Heterologous Light Chain... 23 9.7
pdb|1XLM|A Chain A, D254e, D256e Mutant Of D-Xylose Isomera... 23 9.7
pdb|1XLA|A Chain A, D-Xylose Isomerase (E.C.5.3.1.5) (Apo F... 23 9.7
>pdb|1CK5|B Chain B, Ribosomal Protein L30-Mrna Complex From Yeast
pdb|1CK8|B Chain B, Rpl30-Mrna Complex From Yeast
pdb|1CN8|A Chain A, Ribosomal Protein L30-Mrna Complex From Yeast
pdb|1CN9|A Chain A, Rpl30-Mrna Complex
pdb|1CK2|A Chain A, Yeast (Saccharomyces Cerevisiae) Ribosomal Protein L30
pdb|1CK9|A Chain A, Solution Structure Of Yeast Ribosomal Protein L30
pdb|1CN7|A Chain A, Yeast Ribosomal Protein L30
Length = 104
Score = 27.7 bits (60), Expect = 0.51
Identities = 17/59 (28%), Positives = 32/59 (53%), Gaps = 1/59 (1%)
Query: 4 SKAFGLVYKALDYRSLRQDMIASNIANVDTPFYRPKDLDFESVLAKKKAEIFENQSSKV 62
S + L YK+ +SLRQ I +TP R +L++ ++L+K K F+ ++++
Sbjct: 19 SGKYTLGYKST-VKSLRQGKSKLIIIAANTPVLRKSELEYYAMLSKTKVYYFQGGNNEL 76
>pdb|1KTK|A Chain A, Complex Of Streptococcal Pyrogenic Enterotoxin C (Spec)
With A Human T Cell Receptor Beta Chain (Vbeta2.1)
pdb|1KTK|B Chain B, Complex Of Streptococcal Pyrogenic Enterotoxin C (Spec)
With A Human T Cell Receptor Beta Chain (Vbeta2.1)
pdb|1KTK|C Chain C, Complex Of Streptococcal Pyrogenic Enterotoxin C (Spec)
With A Human T Cell Receptor Beta Chain (Vbeta2.1)
pdb|1KTK|D Chain D, Complex Of Streptococcal Pyrogenic Enterotoxin C (Spec)
With A Human T Cell Receptor Beta Chain (Vbeta2.1)
pdb|1AN8| Crystal Structure Of The Streptococcal Superantigen Spe-C
pdb|1HQR|D Chain D, Crystal Structure Of A Superantigen Bound To The High-
Affinity, Zinc-Dependent Site On Mhc Class Ii
Length = 208
Score = 27.3 bits (59), Expect = 0.67
Identities = 12/42 (28%), Positives = 23/42 (54%)
Query: 15 DYRSLRQDMIASNIANVDTPFYRPKDLDFESVLAKKKAEIFE 56
DY+ R + ++ N+DT YR KD S ++ + ++ F+
Sbjct: 23 DYKDCRVNFSTTHTLNIDTQKYRGKDYYISSEMSYEASQKFK 64
>pdb|1CLQ|A Chain A, Crystal Structure Of A Replication Fork Dna Polymerase
Editing Complex At 2.7 A Resolution
pdb|1WAJ| Dna Polymerase From Bacteriophage Rb69
pdb|1WAF|A Chain A, Dna Polymerase From Bacteriophage Rb69
pdb|1WAF|B Chain B, Dna Polymerase From Bacteriophage Rb69
pdb|1IH7|A Chain A, High-Resolution Structure Of Apo Rb69 Dna Polymerase
Length = 903
Score = 26.2 bits (56), Expect = 1.5
Identities = 22/79 (27%), Positives = 34/79 (42%), Gaps = 10/79 (12%)
Query: 2 DFSKAFGLVYKALDYRSLRQDMIASNIANVDT-PFYRPK-DLDFESVLAKKKA------- 52
++ K F ++ L+Y S+ A+NIA D F PK +L +A
Sbjct: 762 EYFKEFEKEFRQLNYISIASVSSANNIAKYDVGGFPGPKCPFHIRGILTYNRAIKGNIDA 821
Query: 53 -EIFENQSSKVLPLAHTNP 70
++ E + VLPL NP
Sbjct: 822 PQVVEGEKVYVLPLREGNP 840
>pdb|1IG9|A Chain A, Structure Of The Replicating Complex Of A Pol Alpha Family
Dna Polymerase
Length = 903
Score = 26.2 bits (56), Expect = 1.5
Identities = 22/79 (27%), Positives = 34/79 (42%), Gaps = 10/79 (12%)
Query: 2 DFSKAFGLVYKALDYRSLRQDMIASNIANVDT-PFYRPK-DLDFESVLAKKKA------- 52
++ K F ++ L+Y S+ A+NIA D F PK +L +A
Sbjct: 762 EYFKEFEKEFRQLNYISIASVSSANNIAKYDVGGFPGPKCPFHIRGILTYNRAIKGNIDA 821
Query: 53 -EIFENQSSKVLPLAHTNP 70
++ E + VLPL NP
Sbjct: 822 PQVVEGEKVYVLPLREGNP 840
>pdb|1HAV|B Chain B, Hepatitis A Virus 3c Proteinase
Length = 217
Score = 23.9 bits (50), Expect = 7.4
Identities = 14/41 (34%), Positives = 19/41 (46%)
Query: 94 KNDGNSVDLDIETSEMGKNSTMYLALSSALKKYRGVINYAI 134
KNDG +VDL ++ + GK + AL I AI
Sbjct: 147 KNDGTTVDLTVDQAWRGKGEGLPGMXGGALVSSNQSIQNAI 187
>pdb|1HAV|A Chain A, Hepatitis A Virus 3c Proteinase
Length = 217
Score = 23.9 bits (50), Expect = 7.4
Identities = 14/41 (34%), Positives = 19/41 (46%)
Query: 94 KNDGNSVDLDIETSEMGKNSTMYLALSSALKKYRGVINYAI 134
KNDG +VDL ++ + GK + AL I AI
Sbjct: 147 KNDGTTVDLTVDQAWRGKGEGLPGMCGGALVSSNQSIQNAI 187
>pdb|1QA7|A Chain A, Crystal Complex Of The 3c Proteinase From Hepatitis A
Virus With Its Inhibitor And Implications For The
Polyprotein Processing In Hav
pdb|1QA7|C Chain C, Crystal Complex Of The 3c Proteinase From Hepatitis A
Virus With Its Inhibitor And Implications For The
Polyprotein Processing In Hav
Length = 215
Score = 23.9 bits (50), Expect = 7.4
Identities = 14/41 (34%), Positives = 19/41 (46%)
Query: 94 KNDGNSVDLDIETSEMGKNSTMYLALSSALKKYRGVINYAI 134
KNDG +VDL ++ + GK + AL I AI
Sbjct: 147 KNDGTTVDLTVDQAWRGKGEGLPGMCGGALVSSNQSIQNAI 187
>pdb|1QA7|B Chain B, Crystal Complex Of The 3c Proteinase From Hepatitis A
Virus With Its Inhibitor And Implications For The
Polyprotein Processing In Hav
pdb|1QA7|D Chain D, Crystal Complex Of The 3c Proteinase From Hepatitis A
Virus With Its Inhibitor And Implications For The
Polyprotein Processing In Hav
Length = 219
Score = 23.9 bits (50), Expect = 7.4
Identities = 14/41 (34%), Positives = 19/41 (46%)
Query: 94 KNDGNSVDLDIETSEMGKNSTMYLALSSALKKYRGVINYAI 134
KNDG +VDL ++ + GK + AL I AI
Sbjct: 147 KNDGTTVDLTVDQAWRGKGEGLPGMCGGALVSSNQSIQNAI 187
>pdb|4XIA|A Chain A, D-Xylose Isomerase (E.C.5.3.1.5), D-Sorbitol Complex
pdb|4XIA|B Chain B, D-Xylose Isomerase (E.C.5.3.1.5), D-Sorbitol Complex
pdb|5XIA|A Chain A, D-Xylose Isomerase (E.C.5.3.1.5), Xylitol Complex
pdb|5XIA|B Chain B, D-Xylose Isomerase (E.C.5.3.1.5), Xylitol Complex
Length = 393
Score = 23.5 bits (49), Expect = 9.7
Identities = 8/16 (50%), Positives = 11/16 (68%)
Query: 67 HTNPRHLDFENSAKDG 82
+T PRH D++ S DG
Sbjct: 284 YTGPRHFDYKPSRTDG 299
>pdb|1PHO| Phosphoporin (Phoe)
Length = 330
Score = 23.5 bits (49), Expect = 9.7
Identities = 11/39 (28%), Positives = 18/39 (45%)
Query: 52 AEIFENQSSKVLPLAHTNPRHLDFENSAKDGASLFFRDG 90
AEI+ +K+ H +N++KDG + R G
Sbjct: 1 AEIYNKDGNKLDVYGKVKAMHYMSDNASKDGDQSYIRFG 39
>pdb|1LOX| Rabbit Reticulocyte 15-Lipoxygenase
Length = 662
Score = 23.5 bits (49), Expect = 9.7
Identities = 13/33 (39%), Positives = 17/33 (51%)
Query: 31 VDTPFYRPKDLDFESVLAKKKAEIFENQSSKVL 63
VD F K +DFE+ LA AE+ S +L
Sbjct: 162 VDERFLEDKKIDFEASLAWGLAELALKNSLNIL 194
>pdb|1MCW|W Chain W, Immunoglobulin Heterologous Light Chain Dimer (MCG-WEIR
Hybrid)
Length = 216
Score = 23.5 bits (49), Expect = 9.7
Identities = 12/30 (40%), Positives = 17/30 (56%)
Query: 94 KNDGNSVDLDIETSEMGKNSTMYLALSSAL 123
K DG+ V+ +ET++ K S A SS L
Sbjct: 153 KADGSPVEAGVETTKPSKQSNNKYAASSYL 182
>pdb|1XLM|A Chain A, D254e, D256e Mutant Of D-Xylose Isomerase Complexed With
Al3 And Xylitol
pdb|1XLM|B Chain B, D254e, D256e Mutant Of D-Xylose Isomerase Complexed With
Al3 And Xylitol
Length = 394
Score = 23.5 bits (49), Expect = 9.7
Identities = 8/16 (50%), Positives = 11/16 (68%)
Query: 67 HTNPRHLDFENSAKDG 82
+T PRH D++ S DG
Sbjct: 285 YTGPRHFDYKPSRTDG 300
>pdb|1XLA|A Chain A, D-Xylose Isomerase (E.C.5.3.1.5) (Apo Form)
pdb|1XLA|B Chain B, D-Xylose Isomerase (E.C.5.3.1.5) (Apo Form)
pdb|1XLG|A Chain A, D-Xylose Isomerase (E.C.5.3.1.5) Complex With
D-Xylose(Slash)xylulose, Magnesium, And Aluminum
pdb|1XLG|B Chain B, D-Xylose Isomerase (E.C.5.3.1.5) Complex With
D-Xylose(Slash)xylulose, Magnesium, And Aluminum
pdb|1DID|A Chain A, D-Xylose Isomerase (E.C.5.3.1.5) Complex With
2,5-Dideoxy-2,5-Imino-D-Glucitol
pdb|1DID|B Chain B, D-Xylose Isomerase (E.C.5.3.1.5) Complex With
2,5-Dideoxy-2,5-Imino-D-Glucitol
pdb|1DIE|A Chain A, D-Xylose Isomerase (E.C.5.3.1.5) Complex With
1-Deoxy-Nojirimycin
pdb|1DIE|B Chain B, D-Xylose Isomerase (E.C.5.3.1.5) Complex With
1-Deoxy-Nojirimycin
pdb|1XLD|A Chain A, D-Xylose Isomerase (E.C.5.3.1.5) Complex With D-Xylose And
Manganese
pdb|1XLD|B Chain B, D-Xylose Isomerase (E.C.5.3.1.5) Complex With D-Xylose And
Manganese
pdb|1XLF|A Chain A, D-Xylose Isomerase (E.C.5.3.1.5) Complex With Gluconate
And Manganese
pdb|1XLF|B Chain B, D-Xylose Isomerase (E.C.5.3.1.5) Complex With Gluconate
And Manganese
pdb|1XLI|A Chain A, D-Xylose Isomerase (E.C.5.3.1.5) Complex With
5-Thio-Alpha-D-Glucose And Manganese
pdb|1XLI|B Chain B, D-Xylose Isomerase (E.C.5.3.1.5) Complex With
5-Thio-Alpha-D-Glucose And Manganese
pdb|1XLC|A Chain A, D-Xylose Isomerase (E.C.5.3.1.5) Complex With
D-Xylose(Slash)xylulose And Magnesium
pdb|1XLC|B Chain B, D-Xylose Isomerase (E.C.5.3.1.5) Complex With
D-Xylose(Slash)xylulose And Magnesium
pdb|1XLJ|A Chain A, D-Xylose Isomerase (E.C.5.3.1.5) Complex With Xylitol And
Manganese
pdb|1XLJ|B Chain B, D-Xylose Isomerase (E.C.5.3.1.5) Complex With Xylitol And
Manganese
pdb|1XLE|A Chain A, D-Xylose Isomerase (E.C.5.3.1.5) Complex With Manganese
pdb|1XLE|B Chain B, D-Xylose Isomerase (E.C.5.3.1.5) Complex With Manganese
pdb|1XLK|A Chain A, D-Xylose Isomerase (E.C.5.3.1.5) Complex With Manganese
pdb|1XLK|B Chain B, D-Xylose Isomerase (E.C.5.3.1.5) Complex With Manganese
pdb|1XLL|A Chain A, D-Xylose Isomerase (E.C.5.3.1.5) Complex With Zinc
pdb|1XLL|B Chain B, D-Xylose Isomerase (E.C.5.3.1.5) Complex With Zinc
pdb|1XLB|A Chain A, D-Xylose Isomerase (E.C.5.3.1.5) Complex With Magnesium
pdb|1XLB|B Chain B, D-Xylose Isomerase (E.C.5.3.1.5) Complex With Magnesium
pdb|1XLH|A Chain A, D-Xylose Isomerase (E.C.5.3.1.5) Complex With Aluminum
pdb|1XLH|B Chain B, D-Xylose Isomerase (E.C.5.3.1.5) Complex With Aluminum
Length = 394
Score = 23.5 bits (49), Expect = 9.7
Identities = 8/16 (50%), Positives = 11/16 (68%)
Query: 67 HTNPRHLDFENSAKDG 82
+T PRH D++ S DG
Sbjct: 285 YTGPRHFDYKPSRTDG 300
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
0.315 0.132 0.363
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 761,593
Number of Sequences: 13198
Number of extensions: 27950
Number of successful extensions: 82
Number of sequences better than 10.0: 14
Number of HSP's better than 10.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 70
Number of HSP's gapped (non-prelim): 14
length of query: 140
length of database: 2,899,336
effective HSP length: 79
effective length of query: 61
effective length of database: 1,856,694
effective search space: 113258334
effective search space used: 113258334
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 49 (23.5 bits)