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|15645435|ref|NP_207609.1| flagellar motor rotation
protein (motB) [Helicobacter pylori 26695]
(257 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|1VBB|1 Chain 1, Poliovirus (Type 3, Sabin Strain) (P3SA... 26 4.0
pdb|1PVC|1 Chain 1, Mol_id: 1; Molecule: Poliovirus Type 3,... 26 4.0
pdb|1VBE|1 Chain 1, Poliovirus (Type 3, Sabin Strain, Mutan... 26 4.0
pdb|1A6D|A Chain A, Thermosome From T. Acidophilum >gi|4699... 26 5.2
pdb|1C0A|A Chain A, Crystal Structure Of The E. Coli Aspart... 25 6.8
pdb|1EQR|A Chain A, Crystal Structure Of Free Aspartyl-Trna... 25 6.8
pdb|1JD1|B Chain B, Crystal Structure Of Yeo7_yeast >gi|147... 25 8.8
pdb|1EAH|1 Chain 1, Pv2l Complexed With Antiviral Agent Sch... 25 8.8
>pdb|1VBB|1 Chain 1, Poliovirus (Type 3, Sabin Strain) (P3SABIN, P3LEON12A(1)B)
COMPLEXED WITH R80633
pdb|1VBC|1 Chain 1, Poliovirus (Type 3, Sabin Strain) (P3SABIN, P3LEON12A(1)B)
COMPLEXED WITH R77975
pdb|1VBA|1 Chain 1, Poliovirus (Type 3, Sabin Strain) (P3SABIN, P3LEON12A(1)B)
COMPLEXED WITH R78206
Length = 300
Score = 26.2 bits (56), Expect = 4.0
Identities = 12/36 (33%), Positives = 21/36 (58%), Gaps = 7/36 (19%)
Query: 208 GSTNPIAPNDSLENR-------MKNNRVEIFFSTDA 236
G+TNP+AP+D+++ R + +E FF+ A
Sbjct: 48 GATNPLAPSDTVQTRHVVQRRSRSESTIESFFARGA 83
>pdb|1PVC|1 Chain 1, Mol_id: 1; Molecule: Poliovirus Type 3, Sabin Strain;
Chain: 0, 1, 2, 3, 4; Other_details: P3SABIN
P3LEON12A(1)B
pdb|1PIV|1 Chain 1, Poliovirus (Type 3, Sabin Strain) (P3SABIN; P3LEON12A(1)B)
COMPLEXED WITH DISOXARIL (WIN 51711)
Length = 301
Score = 26.2 bits (56), Expect = 4.0
Identities = 12/36 (33%), Positives = 21/36 (58%), Gaps = 7/36 (19%)
Query: 208 GSTNPIAPNDSLENR-------MKNNRVEIFFSTDA 236
G+TNP+AP+D+++ R + +E FF+ A
Sbjct: 49 GATNPLAPSDTVQTRHVVQRRSRSESTIESFFARGA 84
>pdb|1VBE|1 Chain 1, Poliovirus (Type 3, Sabin Strain, Mutant 242-H2) Complexed
With R78206
Length = 300
Score = 26.2 bits (56), Expect = 4.0
Identities = 12/36 (33%), Positives = 21/36 (58%), Gaps = 7/36 (19%)
Query: 208 GSTNPIAPNDSLENR-------MKNNRVEIFFSTDA 236
G+TNP+AP+D+++ R + +E FF+ A
Sbjct: 48 GATNPLAPSDTVQTRHVVQRRSRSESTIESFFARGA 83
>pdb|1A6D|A Chain A, Thermosome From T. Acidophilum
pdb|1A6E|A Chain A, Thermosome - Mg-Adp-Alf3 Complex
Length = 545
Score = 25.8 bits (55), Expect = 5.2
Identities = 19/76 (25%), Positives = 31/76 (40%), Gaps = 7/76 (9%)
Query: 96 TKATIARKGEGSVLEQIDQGSILKLPSNLLFENATSDAINQDMMLYIERIAKIIQKLPKR 155
+KA G+G+ + G +LK LL + I+ L + KII ++ ++
Sbjct: 85 SKAQDTAVGDGTTTAVVLSGELLKQAETLLDQGVHPTVISNGYRLAVNEARKIIDEIAEK 144
Query: 156 VHINVRGFTDDTPLVK 171
TDD L K
Sbjct: 145 -------STDDATLRK 153
>pdb|1C0A|A Chain A, Crystal Structure Of The E. Coli Aspartyl-Trna Synthetase
: Trnaasp : Aspartyl-Adenylate Complex
Length = 585
Score = 25.4 bits (54), Expect = 6.8
Identities = 12/32 (37%), Positives = 18/32 (55%)
Query: 219 LENRMKNNRVEIFFSTDANDLSKIHSILDNEF 250
++ R + V++FF D D K+ S L NEF
Sbjct: 36 IDMRDREGIVQVFFDPDRADALKLASELRNEF 67
>pdb|1EQR|A Chain A, Crystal Structure Of Free Aspartyl-Trna Synthetase From
Escherichia Coli
pdb|1EQR|B Chain B, Crystal Structure Of Free Aspartyl-Trna Synthetase From
Escherichia Coli
pdb|1EQR|C Chain C, Crystal Structure Of Free Aspartyl-Trna Synthetase From
Escherichia Coli
pdb|1IL2|A Chain A, Crystal Structure Of The E. Coli Aspartyl-Trna
Synthetase:yeast Trnaasp:aspartyl-Adenylate Complex
pdb|1IL2|B Chain B, Crystal Structure Of The E. Coli Aspartyl-Trna
Synthetase:yeast Trnaasp:aspartyl-Adenylate Complex
Length = 590
Score = 25.4 bits (54), Expect = 6.8
Identities = 12/32 (37%), Positives = 18/32 (55%)
Query: 219 LENRMKNNRVEIFFSTDANDLSKIHSILDNEF 250
++ R + V++FF D D K+ S L NEF
Sbjct: 36 IDMRDREGIVQVFFDPDRADALKLASELRNEF 67
>pdb|1JD1|B Chain B, Crystal Structure Of Yeo7_yeast
pdb|1JD1|C Chain C, Crystal Structure Of Yeo7_yeast
pdb|1JD1|A Chain A, Crystal Structure Of Yeo7_yeast
pdb|1JD1|F Chain F, Crystal Structure Of Yeo7_yeast
pdb|1JD1|D Chain D, Crystal Structure Of Yeo7_yeast
pdb|1JD1|E Chain E, Crystal Structure Of Yeo7_yeast
Length = 129
Score = 25.0 bits (53), Expect = 8.8
Identities = 14/41 (34%), Positives = 20/41 (48%), Gaps = 4/41 (9%)
Query: 214 APNDSLENRMKNNRVEIFFSTDANDLSKIHSILDNEFNPHK 254
A N SL+ +K N F D N ++ +S+ FN HK
Sbjct: 66 ASNSSLDRVVKVN----IFLADINHFAEFNSVYAKYFNTHK 102
>pdb|1EAH|1 Chain 1, Pv2l Complexed With Antiviral Agent Sch48973
Length = 301
Score = 25.0 bits (53), Expect = 8.8
Identities = 12/36 (33%), Positives = 20/36 (55%), Gaps = 7/36 (19%)
Query: 208 GSTNPIAPNDSLENR-------MKNNRVEIFFSTDA 236
G+TNP+ P+D+++ R + VE FF+ A
Sbjct: 50 GATNPLVPSDTVQTRHVIQKRTRSESTVESFFARGA 85
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
0.314 0.130 0.360
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,402,066
Number of Sequences: 13198
Number of extensions: 53105
Number of successful extensions: 107
Number of sequences better than 10.0: 8
Number of HSP's better than 10.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 101
Number of HSP's gapped (non-prelim): 8
length of query: 257
length of database: 2,899,336
effective HSP length: 86
effective length of query: 171
effective length of database: 1,764,308
effective search space: 301696668
effective search space used: 301696668
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 53 (25.0 bits)