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|15645157|ref|NP_207327.1| cag pathogenicity island
protein (cag11) [Helicobacter pylori 26695]
(218 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|1EQB|B Chain B, X-Ray Crystal Structure At 2.7 Angstrom... 27 2.4
pdb|1DFO|B Chain B, Crystal Structure At 2.4 Angstrom Resol... 26 3.1
pdb|4HB1| A Designed Four Helix Bundle Protein 26 3.1
pdb|1FA9|A Chain A, Human Liver Glycogen Phosphorylase A Co... 26 4.1
pdb|1EM6|A Chain A, Human Liver Glycogen Phosphorylase A Co... 26 4.1
pdb|1FC0|B Chain B, Human Liver Glycogen Phosphorylase Comp... 26 4.1
pdb|1CQD|A Chain A, The 2.1 Angstrom Structure Of A Cystein... 26 4.1
pdb|1KK6|B Chain B, Crystal Structure Of Vat(D) (Form I) >g... 25 9.1
>pdb|1EQB|B Chain B, X-Ray Crystal Structure At 2.7 Angstroms Resolution Of
Ternary Complex Between The Y65f Mutant Of E-Coli Serine
Hydroxymethyltransferase, Glycine And 5-Formyl
Tetrahydrofolate
pdb|1EQB|A Chain A, X-Ray Crystal Structure At 2.7 Angstroms Resolution Of
Ternary Complex Between The Y65f Mutant Of E-Coli Serine
Hydroxymethyltransferase, Glycine And 5-Formyl
Tetrahydrofolate
pdb|1EQB|C Chain C, X-Ray Crystal Structure At 2.7 Angstroms Resolution Of
Ternary Complex Between The Y65f Mutant Of E-Coli Serine
Hydroxymethyltransferase, Glycine And 5-Formyl
Tetrahydrofolate
pdb|1EQB|D Chain D, X-Ray Crystal Structure At 2.7 Angstroms Resolution Of
Ternary Complex Between The Y65f Mutant Of E-Coli Serine
Hydroxymethyltransferase, Glycine And 5-Formyl
Tetrahydrofolate
Length = 417
Score = 26.6 bits (57), Expect = 2.4
Identities = 17/53 (32%), Positives = 26/53 (48%), Gaps = 10/53 (18%)
Query: 59 IEIEKLPQEKRYELLMQIGQAKQRIMEA--------YAHSFLG--YIGGLEHL 101
+E EK+ QE+ EL+ R+M+A YA + G Y GG E++
Sbjct: 19 MEQEKVRQEEHIELIASENYTSPRVMQAQGSQLTNKYAEGYPGKRYFGGCEYV 71
>pdb|1DFO|B Chain B, Crystal Structure At 2.4 Angstrom Resolution Of E. Coli
Serine Hydroxymethyltransferase In Complex With Glycine
And 5-Formyl Tetrahydrofolate
pdb|1DFO|A Chain A, Crystal Structure At 2.4 Angstrom Resolution Of E. Coli
Serine Hydroxymethyltransferase In Complex With Glycine
And 5-Formyl Tetrahydrofolate
pdb|1DFO|D Chain D, Crystal Structure At 2.4 Angstrom Resolution Of E. Coli
Serine Hydroxymethyltransferase In Complex With Glycine
And 5-Formyl Tetrahydrofolate
pdb|1DFO|C Chain C, Crystal Structure At 2.4 Angstrom Resolution Of E. Coli
Serine Hydroxymethyltransferase In Complex With Glycine
And 5-Formyl Tetrahydrofolate
Length = 417
Score = 26.2 bits (56), Expect = 3.1
Identities = 17/53 (32%), Positives = 26/53 (48%), Gaps = 10/53 (18%)
Query: 59 IEIEKLPQEKRYELLMQIGQAKQRIMEA--------YAHSFLG--YIGGLEHL 101
+E EK+ QE+ EL+ R+M+A YA + G Y GG E++
Sbjct: 19 MEQEKVRQEEHIELIASENYTSPRVMQAQGSQLTNKYAEGYPGKRYYGGCEYV 71
>pdb|4HB1| A Designed Four Helix Bundle Protein
Length = 108
Score = 26.2 bits (56), Expect = 3.1
Identities = 19/64 (29%), Positives = 31/64 (47%), Gaps = 2/64 (3%)
Query: 22 QSNDLLNLLDSLYPKGSLGEQRFHEALKNQEELKNILIEIEKLPQEKRYELLMQIGQAKQ 81
Q+ LL L KG GE+ +AL+ ++L E+ K + ELL Q Q Q
Sbjct: 39 QAQQLLQQAQELAKKGGGGEELLKQALQQAQQLLQQAQELAK--KGGGEELLKQALQQAQ 96
Query: 82 RIME 85
++++
Sbjct: 97 QLLQ 100
>pdb|1FA9|A Chain A, Human Liver Glycogen Phosphorylase A Complexed With Amp
Length = 846
Score = 25.8 bits (55), Expect = 4.1
Identities = 11/20 (55%), Positives = 14/20 (70%)
Query: 53 ELKNILIEIEKLPQEKRYEL 72
EL I ++IEKLP K +EL
Sbjct: 348 ELMRIFVDIEKLPWSKAWEL 367
>pdb|1EM6|A Chain A, Human Liver Glycogen Phosphorylase A Complexed With Glcnac
And Cp-526,423
pdb|1EM6|B Chain B, Human Liver Glycogen Phosphorylase A Complexed With Glcnac
And Cp-526,423
pdb|1EXV|A Chain A, Human Liver Glycogen Phosphorylase A Complexed With Glcnac
And Cp-403,700
pdb|1EXV|B Chain B, Human Liver Glycogen Phosphorylase A Complexed With Glcnac
And Cp-403,700
Length = 847
Score = 25.8 bits (55), Expect = 4.1
Identities = 11/20 (55%), Positives = 14/20 (70%)
Query: 53 ELKNILIEIEKLPQEKRYEL 72
EL I ++IEKLP K +EL
Sbjct: 349 ELMRIFVDIEKLPWSKAWEL 368
>pdb|1FC0|B Chain B, Human Liver Glycogen Phosphorylase Complexed With
N-Acetyl- Beta-D-Glucopyranosylamine
pdb|1FC0|A Chain A, Human Liver Glycogen Phosphorylase Complexed With
N-Acetyl- Beta-D-Glucopyranosylamine
Length = 846
Score = 25.8 bits (55), Expect = 4.1
Identities = 11/20 (55%), Positives = 14/20 (70%)
Query: 53 ELKNILIEIEKLPQEKRYEL 72
EL I ++IEKLP K +EL
Sbjct: 348 ELMRIFVDIEKLPWSKAWEL 367
>pdb|1CQD|A Chain A, The 2.1 Angstrom Structure Of A Cysteine Protease With
Proline Specificity From Ginger Rhizome, Zingiber
Officinal
pdb|1CQD|B Chain B, The 2.1 Angstrom Structure Of A Cysteine Protease With
Proline Specificity From Ginger Rhizome, Zingiber
Officinal
pdb|1CQD|C Chain C, The 2.1 Angstrom Structure Of A Cysteine Protease With
Proline Specificity From Ginger Rhizome, Zingiber
Officinal
pdb|1CQD|D Chain D, The 2.1 Angstrom Structure Of A Cysteine Protease With
Proline Specificity From Ginger Rhizome, Zingiber
Officinal
Length = 221
Score = 25.8 bits (55), Expect = 4.1
Identities = 11/32 (34%), Positives = 20/32 (62%)
Query: 151 LFFGLETIRSIYELYILGIGSTNDKVLFVLKN 182
+F G I + + L ++G G+ NDK +++KN
Sbjct: 150 IFTGSCNISANHALTVVGYGTENDKDFWIVKN 181
>pdb|1KK6|B Chain B, Crystal Structure Of Vat(D) (Form I)
pdb|1KK6|C Chain C, Crystal Structure Of Vat(D) (Form I)
pdb|1KK4|D Chain D, Crystal Structure Of Vat(D) In Complex With Acetyl-Coa
pdb|1KK4|A Chain A, Crystal Structure Of Vat(D) In Complex With Acetyl-Coa
pdb|1KK4|F Chain F, Crystal Structure Of Vat(D) In Complex With Acetyl-Coa
pdb|1KHR|D Chain D, Crystal Structure Of Vat(D) In Complex With
Virginiamycin And Coenzyme A
pdb|1KK6|A Chain A, Crystal Structure Of Vat(D) (Form I)
pdb|1KK4|B Chain B, Crystal Structure Of Vat(D) In Complex With Acetyl-Coa
pdb|1KK4|C Chain C, Crystal Structure Of Vat(D) In Complex With Acetyl-Coa
pdb|1KK5|C Chain C, Crystal Structure Of Vat(D) (Form Ii)
pdb|1KK5|D Chain D, Crystal Structure Of Vat(D) (Form Ii)
pdb|1KHR|E Chain E, Crystal Structure Of Vat(D) In Complex With
Virginiamycin And Coenzyme A
pdb|1KK5|A Chain A, Crystal Structure Of Vat(D) (Form Ii)
pdb|1KK5|B Chain B, Crystal Structure Of Vat(D) (Form Ii)
pdb|1KHR|C Chain C, Crystal Structure Of Vat(D) In Complex With
Virginiamycin And Coenzyme A
pdb|1KHR|B Chain B, Crystal Structure Of Vat(D) In Complex With
Virginiamycin And Coenzyme A
pdb|1KK5|E Chain E, Crystal Structure Of Vat(D) (Form Ii)
pdb|1KK5|F Chain F, Crystal Structure Of Vat(D) (Form Ii)
pdb|1KHR|A Chain A, Crystal Structure Of Vat(D) In Complex With
Virginiamycin And Coenzyme A
pdb|1KHR|F Chain F, Crystal Structure Of Vat(D) In Complex With
Virginiamycin And Coenzyme A
pdb|1KK4|E Chain E, Crystal Structure Of Vat(D) In Complex With Acetyl-Coa
Length = 209
Score = 24.6 bits (52), Expect = 9.1
Identities = 18/85 (21%), Positives = 31/85 (36%)
Query: 9 GPNPLNAPPPSNSQSNDLLNLLDSLYPKGSLGEQRFHEALKNQEELKNILIEIEKLPQEK 68
GPNP+ P ++S + + +GE ++++ + K IL L +
Sbjct: 2 GPNPMKMYPIEGNKSVQFIKPILEKLENVEVGEYSYYDSKNGETFDKQILYHYPILNDKL 61
Query: 69 RYELLMQIGQAKQRIMEAYAHSFLG 93
+ IG IM H G
Sbjct: 62 KIGKFCSIGPGVTIIMNGANHRMDG 86
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
0.323 0.144 0.414
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,230,068
Number of Sequences: 13198
Number of extensions: 48007
Number of successful extensions: 89
Number of sequences better than 10.0: 8
Number of HSP's better than 10.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 84
Number of HSP's gapped (non-prelim): 8
length of query: 218
length of database: 2,899,336
effective HSP length: 85
effective length of query: 133
effective length of database: 1,777,506
effective search space: 236408298
effective search space used: 236408298
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)