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|15644948|ref|NP_207118.1| conserved hypothetical
secreted protein [Helicobacter pylori 26695]
(79 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|1AN7|A Chain A, Ribosomal Protein S8 From Thermus Therm... 28 0.24
pdb|1EG0|E Chain E, Fitting Of Components With Known Struct... 28 0.24
pdb|1I94|H Chain H, Crystal Structures Of The Small Ribosom... 27 0.31
pdb|1GO3|F Chain F, Structure Of An Archeal Homolog Of The ... 23 5.8
pdb|1MWR|A Chain A, Structure Of Semet Penicillin Binding P... 23 5.8
pdb|1MWS|A Chain A, Structure Of Nitrocefin Acyl-Penicillin... 23 7.6
pdb|1EZW|A Chain A, Structure Of Coenzyme F420 Dependent Te... 23 7.6
pdb|1MWX|A Chain A, Structure Of Penicillin Binding Protein... 23 7.6
>pdb|1AN7|A Chain A, Ribosomal Protein S8 From Thermus Thermophilus
pdb|1AN7|B Chain B, Ribosomal Protein S8 From Thermus Thermophilus
pdb|1QD7|G Chain G, Partial Model For 30s Ribosomal Subunit
pdb|1EMI|A Chain A, Structure Of 16s Rrna In The Region Around Ribosomal
Protein S8
Length = 136
Score = 27.7 bits (60), Expect = 0.24
Identities = 13/31 (41%), Positives = 17/31 (53%)
Query: 22 GAKKIPELAKGLGSGIKNFKKAVKDDEEEAK 52
G K+IP + +GLG I + K V D E K
Sbjct: 94 GVKEIPRVRRGLGIAILSTSKGVLTDREARK 124
>pdb|1EG0|E Chain E, Fitting Of Components With Known Structure Into An 11.5 A
Cryo-Em Map Of The E.Coli 70s Ribosome
pdb|1FJG|H Chain H, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With The Antibiotics Streptomycin,
Spectinomycin And Paromomycin
pdb|1IBL|H Chain H, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With A Messenger Rna Fragment And
Cognate Transfer Rna Anticodon Stem-Loop Bound At The A
Site And With The Antibiotic Paromomycin
pdb|1HR0|H Chain H, Crystal Structure Of Initiation Factor If1 Bound To The
30s Ribosomal Subunit
pdb|1HNZ|H Chain H, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Hygromycin B
pdb|1IBM|H Chain H, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With A Messenger Rna Fragment And
Cognate Transfer Rna Anticodon Stem-Loop Bound At The A
Site
pdb|1IBK|H Chain H, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With The Antibiotic Paromomycin
pdb|1HNW|H Chain H, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Tetracycline
pdb|1HNX|H Chain H, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Pactamycin
pdb|1FKA|H Chain H, Structure Of Functionally Activated Small Ribosomal
Subunit At 3.3 A Resolution
pdb|1JGQ|K Chain K, The Path Of Messenger Rna Through The Ribosome. This File,
1jgq, Contains The 30s Ribosome Subunit, Three Trna, And
Mrna Molecules. 50s Ribosome Subunit Is In The File 1giy
pdb|1GIX|K Chain K, Crystal Structure Of The Ribosome At 5.5 A Resolution.
This File, 1gix, Contains The 30s Ribosome Subunit,
Three Trna, And Mrna Molecules. 50s Ribosome Subunit Is
In The File 1giy
pdb|1JGO|K Chain K, The Path Of Messenger Rna Through The Ribosome. This File,
1jgo, Contains The 30s Ribosome Subunit, Three Trna, And
Mrna Molecules. 50s Ribosome Subunit Is In The File 1giy
pdb|1JGP|K Chain K, The Path Of Messenger Rna Through The Ribosome. This File,
1jgp, Contains The 30s Ribosome Subunit, Three Trna, And
Mrna Molecules. 50s Ribosome Subunit Is In The File 1giy
pdb|1J5E|H Chain H, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit
Length = 138
Score = 27.7 bits (60), Expect = 0.24
Identities = 13/31 (41%), Positives = 17/31 (53%)
Query: 22 GAKKIPELAKGLGSGIKNFKKAVKDDEEEAK 52
G K+IP + +GLG I + K V D E K
Sbjct: 96 GVKEIPRVRRGLGIAILSTSKGVLTDREARK 126
>pdb|1I94|H Chain H, Crystal Structures Of The Small Ribosomal Subunit With
Tetracycline, Edeine And If3
pdb|1I96|H Chain H, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With The Translation
Initiation Factor If3 (C-Terminal Domain)
pdb|1I97|H Chain H, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With Tetracycline
pdb|1I95|H Chain H, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With Edeine
Length = 138
Score = 27.3 bits (59), Expect = 0.31
Identities = 13/31 (41%), Positives = 17/31 (53%)
Query: 22 GAKKIPELAKGLGSGIKNFKKAVKDDEEEAK 52
G K+IP + +GLG I + K V D E K
Sbjct: 96 GVKEIPRVRRGLGIAILSTPKGVLTDREARK 126
>pdb|1GO3|F Chain F, Structure Of An Archeal Homolog Of The Eukaryotic Rna
Polymerase Ii Rpb4RPB7 COMPLEX
pdb|1GO3|N Chain N, Structure Of An Archeal Homolog Of The Eukaryotic Rna
Polymerase Ii Rpb4RPB7 COMPLEX
Length = 107
Score = 23.1 bits (48), Expect = 5.8
Identities = 13/43 (30%), Positives = 22/43 (50%)
Query: 10 WVIVLLVIVLLFGAKKIPELAKGLGSGIKNFKKAVKDDEEEAK 52
+V V +++ +I EL+ G + +K K D+EEAK
Sbjct: 11 YVTVSEAAEIMYNRAQIGELSYEQGCALDYLQKFAKLDKEEAK 53
>pdb|1MWR|A Chain A, Structure Of Semet Penicillin Binding Protein 2a From
Methicillin Resistant Staphylococcus Aureus Strain 27r
(Trigonal Form) At 2.45 A Resolution.
pdb|1MWR|B Chain B, Structure Of Semet Penicillin Binding Protein 2a From
Methicillin Resistant Staphylococcus Aureus Strain 27r
(Trigonal Form) At 2.45 A Resolution
Length = 646
Score = 23.1 bits (48), Expect = 5.8
Identities = 10/37 (27%), Positives = 19/37 (51%)
Query: 38 KNFKKAVKDDEEEAKNEPKTLDAQATQTKVHESSEIK 74
KNFK+ KD +K++ ++ K++ S +K
Sbjct: 18 KNFKQVYKDSSYISKSDNGEVEXTERPIKIYNSLGVK 54
>pdb|1MWS|A Chain A, Structure Of Nitrocefin Acyl-Penicillin Binding Protein
2a From Methicillin Resistant Staphylococcus Aureus
Strain 27r At 2.00 A Resolution.
pdb|1MWS|B Chain B, Structure Of Nitrocefin Acyl-Penicillin Binding Protein
2a From Methicillin Resistant Staphylococcus Aureus
Strain 27r At 2.00 A Resolution.
pdb|1MWT|A Chain A, Structure Of Penicillin G Acyl-Penicillin Binding
Protein 2a From Methicillin Resistant Staphylococcus
Aureus Strain 27r At 2.45 A Resolution.
pdb|1MWT|B Chain B, Structure Of Penicillin G Acyl-Penicillin Binding
Protein 2a From Methicillin Resistant Staphylococcus
Aureus Strain 27r At 2.45 A Resolution.
pdb|1MWU|A Chain A, Structure Of Methicillin Acyl-Penicillin Binding Protein
2a From Methicillin Resistant Staphylococcus Aureus
Strain 27r At 2.60 A Resolution.
pdb|1MWU|B Chain B, Structure Of Methicillin Acyl-Penicillin Binding Protein
2a From Methicillin Resistant Staphylococcus Aureus
Strain 27r At 2.60 A Resolution
Length = 646
Score = 22.7 bits (47), Expect = 7.6
Identities = 10/37 (27%), Positives = 19/37 (51%)
Query: 38 KNFKKAVKDDEEEAKNEPKTLDAQATQTKVHESSEIK 74
KNFK+ KD +K++ ++ K++ S +K
Sbjct: 18 KNFKQVYKDSSYISKSDNGEVEMTERPIKIYNSLGVK 54
>pdb|1EZW|A Chain A, Structure Of Coenzyme F420 Dependent
Tetrahydromethanopterin Reductase From Methanopyrus
Kandler
Length = 349
Score = 22.7 bits (47), Expect = 7.6
Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 3/39 (7%)
Query: 24 KKIPELAKGL---GSGIKNFKKAVKDDEEEAKNEPKTLD 59
K E+A G+ S K+F+ AV EE AK ++LD
Sbjct: 184 KTAGEIANGVLVNASNPKDFEVAVPKIEEGAKEAGRSLD 222
>pdb|1MWX|A Chain A, Structure Of Penicillin Binding Protein 2a From
Methicillin Resistant Staphylococcus Aureus Strain 27r
At 1.80 A Resolution.
pdb|1MWX|B Chain B, Structure Of Penicillin Binding Protein 2a From
Methicillin Resistant Staphylococcus Aureus Strain 27r
At 1.80 A Resolution
Length = 646
Score = 22.7 bits (47), Expect = 7.6
Identities = 10/37 (27%), Positives = 19/37 (51%)
Query: 38 KNFKKAVKDDEEEAKNEPKTLDAQATQTKVHESSEIK 74
KNFK+ KD +K++ ++ K++ S +K
Sbjct: 18 KNFKQVYKDSSYISKSDNGEVEMTERPIKIYNSLGVK 54
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
0.311 0.130 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: 423,057
Number of Sequences: 13198
Number of extensions: 13257
Number of successful extensions: 16
Number of sequences better than 10.0: 8
Number of HSP's better than 10.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 9
Number of HSP's gapped (non-prelim): 8
length of query: 79
length of database: 2,899,336
effective HSP length: 55
effective length of query: 24
effective length of database: 2,173,446
effective search space: 52162704
effective search space used: 52162704
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 46 (22.3 bits)