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|15645933|ref|NP_208112.1| ribosomal protein S10
(rps10) [Helicobacter pylori 26695]
(104 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|1FJG|J Chain J, Structure Of The Thermus Thermophilus 3... 114 1e-27
pdb|1J5E|J Chain J, Structure Of The Thermus Thermophilus 3... 113 4e-27
pdb|1QJ2|C Chain C, Co Dehydrogenase From Oligotropha Carbo... 24 2.2
pdb|1K8A|U Chain U, Co-Crystal Structure Of Carbomycin A Bo... 24 2.9
pdb|1GQ2|A Chain A, Malic Enzyme From Pigeon Liver >gi|2146... 24 2.9
pdb|1BP1| Crystal Structure Of Bpi, The Human Bactericida... 23 3.8
pdb|1EWF|A Chain A, The 1.7 Angstrom Crystal Structure Of Bpi 23 3.8
pdb|1IVY|A Chain A, Physiological Dimer Hpp Precursor >gi|2... 23 3.8
pdb|1MLI| Muconolactone Isomerase (E.C.5.3.3.4) 23 6.4
>pdb|1FJG|J Chain J, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With The Antibiotics Streptomycin,
Spectinomycin And Paromomycin
pdb|1IBL|J Chain J, 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|J Chain J, Crystal Structure Of Initiation Factor If1 Bound To The
30s Ribosomal Subunit
pdb|1HNZ|J Chain J, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Hygromycin B
pdb|1IBM|J Chain J, 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|J Chain J, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With The Antibiotic Paromomycin
pdb|1HNW|J Chain J, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Tetracycline
pdb|1HNX|J Chain J, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Pactamycin
pdb|1JGQ|M Chain M, 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|M Chain M, 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|M Chain M, 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|M Chain M, 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
Length = 105
Score = 114 bits (286), Expect = 1e-27
Identities = 51/101 (50%), Positives = 77/101 (75%)
Query: 1 MEKIRLKLKAYDHRVLDRSVVAIVEAVKRSGSEIRGPIPLPTKNKRYTVLRSPHVNKDSR 60
M KIR+KL+ +DH+ LD S IVEA +RSG+++ GPIPLPT+ +R+TV+R P +KDSR
Sbjct: 1 MPKIRIKLRGFDHKTLDASAQKIVEAARRSGAQVSGPIPLPTRVRRFTVIRGPFKHKDSR 60
Query: 61 EQFEIRVYSRLIDIISATPETVDSLMKLDLAPEVDVEVTSM 101
E FE+R ++RL+DII+ +T++ LM LDL V++E+ ++
Sbjct: 61 EHFELRTHNRLVDIINPNRKTIEQLMTLDLPTGVEIEIKTV 101
>pdb|1J5E|J Chain J, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit
pdb|1I94|J Chain J, Crystal Structures Of The Small Ribosomal Subunit With
Tetracycline, Edeine And If3
pdb|1I96|J Chain J, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With The Translation
Initiation Factor If3 (C-Terminal Domain)
pdb|1I97|J Chain J, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With Tetracycline
pdb|1I95|J Chain J, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With Edeine
Length = 104
Score = 113 bits (282), Expect = 4e-27
Identities = 50/99 (50%), Positives = 76/99 (76%)
Query: 3 KIRLKLKAYDHRVLDRSVVAIVEAVKRSGSEIRGPIPLPTKNKRYTVLRSPHVNKDSREQ 62
KIR+KL+ +DH+ LD S IVEA +RSG+++ GPIPLPT+ +R+TV+R P +KDSRE
Sbjct: 2 KIRIKLRGFDHKTLDASAQKIVEAARRSGAQVSGPIPLPTRVRRFTVIRGPFKHKDSREH 61
Query: 63 FEIRVYSRLIDIISATPETVDSLMKLDLAPEVDVEVTSM 101
FE+R ++RL+DII+ +T++ LM LDL V++E+ ++
Sbjct: 62 FELRTHNRLVDIINPNRKTIEQLMTLDLPTGVEIEIKTV 100
>pdb|1QJ2|C Chain C, Co Dehydrogenase From Oligotropha Carboxidovorans
pdb|1QJ2|I Chain I, Co Dehydrogenase From Oligotropha Carboxidovorans
Length = 285
Score = 24.3 bits (51), Expect = 2.2
Identities = 14/34 (41%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 10 AYDHRVLDRSVVAIVEAVKRSGSEIRGPIPLPTK 43
A D LD++V A+ EA+ S+ RGP TK
Sbjct: 237 ALDKPALDKAV-ALAEAITAPASDGRGPAEYRTK 269
>pdb|1K8A|U Chain U, Co-Crystal Structure Of Carbomycin A Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1K9M|U Chain U, Co-Crystal Structure Of Tylosin Bound To The 50s Ribosomal
Subunit Of Haloarcula Marismortui
pdb|1KD1|U Chain U, Co-Crystal Structure Of Spiramycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M1K|U Chain U, Co-Crystal Structure Of Azithromycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M90|U Chain U, Co-Crystal Structure Of Cca-Phe-Caproic Acid-Biotin And
Sparsomycin Bound To The 50s Ribosomal Subunit
pdb|1JJ2|S Chain S, Fully Refined Crystal Structure Of The Haloarcula
Marismortui Large Ribosomal Subunit At 2.4 Angstrom
Resolution
pdb|1KQS|S Chain S, The Haloarcula Marismortui 50s Complexed With A
Pretranslocational Intermediate In Protein Synthesis
pdb|1FFK|Q Chain Q, Crystal Structure Of The Large Ribosomal Subunit From
Haloarcula Marismortui At 2.4 Angstrom Resolution
pdb|1GIY|U Chain U, Crystal Structure Of The Ribosome At 5.5 A Resolution.
This File, 1giy, Contains The 50s Ribosome Subunit. The
30s Ribosome Subunit, Three Trna, And Mrna Molecules Are
In The File 1gix
Length = 119
Score = 23.9 bits (50), Expect = 2.9
Identities = 16/51 (31%), Positives = 26/51 (50%), Gaps = 4/51 (7%)
Query: 16 LDRSVVAIVEAV--KRSGSEIRGPIPLPTKNKRYTVLRSPHVNKDSREQFE 64
LD++V+ + + K G E+ P PL T N R T L +++R + E
Sbjct: 67 LDKAVIHVEDVTLEKTDGEEV--PRPLDTSNVRVTDLDLEDEKREARLESE 115
>pdb|1GQ2|A Chain A, Malic Enzyme From Pigeon Liver
pdb|1GQ2|B Chain B, Malic Enzyme From Pigeon Liver
pdb|1GQ2|C Chain C, Malic Enzyme From Pigeon Liver
pdb|1GQ2|D Chain D, Malic Enzyme From Pigeon Liver
pdb|1GQ2|E Chain E, Malic Enzyme From Pigeon Liver
pdb|1GQ2|F Chain F, Malic Enzyme From Pigeon Liver
pdb|1GQ2|G Chain G, Malic Enzyme From Pigeon Liver
pdb|1GQ2|H Chain H, Malic Enzyme From Pigeon Liver
pdb|1GQ2|I Chain I, Malic Enzyme From Pigeon Liver
pdb|1GQ2|J Chain J, Malic Enzyme From Pigeon Liver
pdb|1GQ2|K Chain K, Malic Enzyme From Pigeon Liver
pdb|1GQ2|L Chain L, Malic Enzyme From Pigeon Liver
pdb|1GQ2|M Chain M, Malic Enzyme From Pigeon Liver
pdb|1GQ2|N Chain N, Malic Enzyme From Pigeon Liver
pdb|1GQ2|O Chain O, Malic Enzyme From Pigeon Liver
pdb|1GQ2|P Chain P, Malic Enzyme From Pigeon Liver
Length = 555
Score = 23.9 bits (50), Expect = 2.9
Identities = 12/27 (44%), Positives = 15/27 (55%), Gaps = 6/27 (22%)
Query: 45 KRYTVLRSPHVNK------DSREQFEI 65
K Y VLR PH+NK + R+Q I
Sbjct: 2 KGYEVLRDPHLNKGXAFTLEERQQLNI 28
>pdb|1BP1| Crystal Structure Of Bpi, The Human Bactericidal
Permeability-Increasing Protein
Length = 456
Score = 23.5 bits (49), Expect = 3.8
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 37 PIPLPTKNKRYTVLRSPHVN 56
P+P P + + Y V+ PH N
Sbjct: 426 PLPTPARVQLYNVVLQPHQN 445
>pdb|1EWF|A Chain A, The 1.7 Angstrom Crystal Structure Of Bpi
Length = 456
Score = 23.5 bits (49), Expect = 3.8
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 37 PIPLPTKNKRYTVLRSPHVN 56
P+P P + + Y V+ PH N
Sbjct: 426 PLPTPARVQLYNVVLQPHQN 445
>pdb|1IVY|A Chain A, Physiological Dimer Hpp Precursor
pdb|1IVY|B Chain B, Physiological Dimer Hpp Precursor
Length = 452
Score = 23.5 bits (49), Expect = 3.8
Identities = 11/33 (33%), Positives = 17/33 (51%)
Query: 25 EAVKRSGSEIRGPIPLPTKNKRYTVLRSPHVNK 57
+A+ RSG ++R P T L +P+V K
Sbjct: 288 QALLRSGDKVRMDPPCTNTTAASTYLNNPYVRK 320
>pdb|1MLI| Muconolactone Isomerase (E.C.5.3.3.4)
Length = 96
Score = 22.7 bits (47), Expect = 6.4
Identities = 9/19 (47%), Positives = 14/19 (73%)
Query: 83 DSLMKLDLAPEVDVEVTSM 101
D+LM+L L P +D+EV +
Sbjct: 66 DTLMQLPLFPYMDIEVDGL 84
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
0.316 0.133 0.355
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 517,225
Number of Sequences: 13198
Number of extensions: 17420
Number of successful extensions: 39
Number of sequences better than 10.0: 9
Number of HSP's better than 10.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 31
Number of HSP's gapped (non-prelim): 9
length of query: 104
length of database: 2,899,336
effective HSP length: 80
effective length of query: 24
effective length of database: 1,843,496
effective search space: 44243904
effective search space used: 44243904
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: 46 (22.3 bits)